4 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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checkpoint64j (2013/07/04) |
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o pkg/offline: |
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- to enable the use of other features with pkg offline (e.g., obcs), |
10 |
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also call S/R DO_OCEANIC_PHYS in offline run - more modifs to come. |
11 |
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- comment out "allowFreezing" (now active) in 2 offline testing exp. |
12 |
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o pkg/exf ALLOW_RUNOFTEMP |
13 |
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- fix sign and make compatible with temp_EvPrRn .NE. UNSET_RL |
14 |
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- added RUNOFTEMP test to verification/global_ocean.cs32x15/input.seaice |
15 |
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- changes verification/global_ocean.cs32x15/results/output.seaice.txt |
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o pkg/atm_phys: |
17 |
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- allows to add some damping on uVel,vVel (strength only function of k). |
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o verification, ad-tests: |
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- reduce length of the simulation for AD test: global_ocean.cs32x15.seaice, |
20 |
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global_ocean_ebm and offline_exf_seaice.thsice. |
21 |
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o verification/halfpipe_streamice: |
22 |
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- found a bug in s/r pkg/streamice/streamice_advect_thickness which caused |
23 |
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flux input boundary conditions to be ignored; a fix for this bug changed |
24 |
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verification results for forward test. |
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- add adjoint test. |
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o pkg/ptracers: |
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- allow to restart without SOM pickup (resetting SOM to zero). |
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o pkg/gmredi: |
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- New parameterisation for the calculation of K and (GM_PsiX,GM_PsiY) added. |
30 |
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- It uses mixing length theory and suppression by steering level effects to |
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calculate a diffusivity used in the Redi tensor (see Bates et al., submitted |
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to JPO, for more details). |
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- It also uses the diffusivity to calculate an eddy induced streamfunction |
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based on a PV closure (rather than a buoyancy closure as in GM). |
35 |
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- New files added to pkg/gmredi: |
36 |
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gmredi_k3d.F calculates the diffusivity for the Redi tensor and the eddy |
37 |
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induced overturning streamfunction (called from gmredi_calc_tensor) |
38 |
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gmredi_calc_eigs.F calculates the eigenvalues and eigenvectors required |
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for use in gmredi_k3d |
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gmredi_calc_urms.F calculates the the rms eddy velocity used to calculate |
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the eddy diffusivity |
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|
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checkpoint64i (2013/06/18) |
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o pkg/cheapaml: |
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- take src files from MITgcm_contrib/verification_other/offline_cheapaml/code |
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that enable the use of seaice (pkg/thsice thermo & pkg/seaice dynamics) |
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with pkg/cheapaml. |
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o utils/python: add subpackage for cubed sphere function, first example is |
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simple cs.pcol to plot 2D fields on a map |
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o pkg/streamice: |
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- This is a new package in MITgcm, which solves dynamic equations for ice |
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sheets and ice streams |
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- At the moment it is independent of atmosphere/ocean dynamics, or any |
54 |
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other physical packages in MITgcm, even ShelfIce (although it is anticipat- |
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ed that this will change) |
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- There is a new verification exercise that tests it, halfpipe_streamice, |
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evolves a 40x80 km ice stream/ice shelf (at coarse resolution) in a |
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rectangular embayment |
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- halfpipe_streamice is forward-only for now, will have TAF test soon |
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- for questions, email dgoldber@mit.edu |
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o pkg/thsice: |
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- fix filling of snow-precip diagnostic (SIsnwPrc) (left from the removing |
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of snowPrc from common bloc, on May 2nd, thsice_step_fwd.F revision 1.40); |
64 |
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- remove diagnostics 'SI_FrcFx' ( now identical to 'SI_Fract' with new |
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call sequence: ice-Thermo(thsice),ice-Dyn,ice-Advect ); |
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- allow precip from pkg/cheapaml to make snow over seaice. |
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o pkg/cfc: |
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- move in separated header file (CFC_ATMOS.h) time-serie arrays of Atmos CFC |
69 |
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- remove atmos CFC 2-D arrays from common bloc (now local variables) |
70 |
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- change some hard-coded constant to run time parameter for reading and |
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and interpolating atmospheric CFC ; keep same default as previously. |
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- more flexible reading of Atmos CFC (number of records no longer hard-coded) |
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- put arguments in standard order: myTime, myIter, myThid |
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- use standard S/R GET_PERIODIC_INTERVAL for time interpolation of |
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atmospheric CFC ; fix for the case myIter < PTRACERS_iter0. |
76 |
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- fix calculation of surf tendencys for partial-cell and/or Non-Lin Free-Surf |
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- new routine to print summary of CFC params and check for consistency. |
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o pkg/seaice: add uice/vice to the parameter list of s/r seaice_advdiff, |
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similar to thsice_advdiff. |
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Note that for the B-grid case the routine parameters uc/vc are overwritten. |
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o pkg/cfc: |
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- change time interpolation for atmospheric CFC-11 (now same as for CFC-12); |
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update output (CFC-11) of experiment cfc_example and tutorial_cfc_offline. |
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- fix interpolation of atmphspheric CFC between Sorthern and Northern |
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hemisphere value. |
86 |
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o pkg/seaice: |
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- allow to use seaice dynamics without pkg/exf (e.g., using pkg/cheapaml) |
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o pkg/seaice: add Adams-Bashforth2 time discretization for ice dynamics; |
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so far only for JFNK-solver, turn on with SEAICEuseAB2 = .TRUE. |
90 |
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- requires an additional time level that is stored in the pickup |
91 |
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- you can start with AB2 from a pickup without this time level with |
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pickupStrictlyMatch = .false. |
93 |
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|
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checkpoint64h (2013/05/26) |
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o pkg/cheapaml: |
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- replace one ()**.5 with SQRT + use temp var "cdu = tau/Du" (coare3_flux); |
97 |
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affect machine truncation (but exp cheapAML_box still pass with 13 digits). |
98 |
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- consistent treatment of uWind,vWind location: assume everywhere in |
99 |
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pkg/cheapaml that they are on C-grid (@ uVel,vVel location) |
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(Note: was already the case for Tair,Qair advection); |
101 |
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add option (INCONSISTENT_WIND_LOCATION) to recover old results. |
102 |
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- compute diabatic forcing only in the interior (excluding overlap regions) |
103 |
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- fill in array "Qsw" (for short-wave heating); |
104 |
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- add diagnostic for precip ; fill-in diagnostics for cheapAML state vars |
105 |
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before any update (consistent with MITgcm state var diagnostics); |
106 |
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- cheapaml_fields_load.F & cheapaml_init_varia.F : only fill outer edges if |
107 |
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non periodic ; + adjusted for uWind,vWind (C-grid). |
108 |
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o pkg/seaice: |
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- remove dependence of pkg/seaice versus pkg/exf (file: pkg/pkg_depend) and |
110 |
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add explicitly pkg/exf in experiments that currently use pkg/seaice. |
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- allows to compile pkg/seaice without pkg/exf. |
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o tools/OAD_support: |
113 |
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- use a local copy (ourRWCPinBd) to ensure index ourRWCP stays within bounds |
114 |
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of array "ourStepOf" in function rvNextAction (revolve.F90). |
115 |
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o pkg/aim_compon_interf renamed to pkg/atm_compon_interf |
116 |
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- change pkg name (to be used with other atmospheric physics pkg) |
117 |
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but by-pass CVS when making the new pkg so that we keep the CVS history. |
118 |
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o pkg/offline: |
119 |
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- call OFFLINE_FIELDS_LOAD from pkg/offline/offline_init_varia.F |
120 |
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(previously called from pkg/dic_surfforcing_init.F) |
121 |
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o model/src: |
122 |
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- re-order sequence of calls within packages_init_variables.F, using |
123 |
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standard order, except for: |
124 |
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DIAGNOSTICS_INIT_VARIA and OFFLINE_INIT_VARIA (called @ the top), |
125 |
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CTRL_MAP_INI and OBCS_INIT_VARIABLES (called @ the bottom) |
126 |
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o new pkg: atm_phys |
127 |
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- add entry point and source code (previously in contrib |
128 |
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verification_other/atm_gray/code_gray/) for new pkg "atm_phys" |
129 |
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(atmospheric physics pkg from P. O'Gorman and T. Schneider, JCl, 2008). |
130 |
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- re-order sequence of calls within packages_readparms.F, |
131 |
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packages_init_fixed.F and packages_write_pickup.F |
132 |
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(but skip packages_init_variables.F because of TAF issues). |
133 |
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- update contrib/*/atm_gray/ experiment. |
134 |
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o pkg/seaice (ITD code): |
135 |
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- simplify and fix the writing of pickup-files for ITD case |
136 |
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o pkg/seaice (ITD code): |
137 |
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- introduce floe size dependent lateral melt for ITD case; |
138 |
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- cleaning (avoid division by zero, change to f77 syntax, remove tabs) |
139 |
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- update seaice_itd experiment main output. |
140 |
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o pkg/thsice: |
141 |
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- remove snowPrc from common block THSICE_FLUX, in THSICE_VARS.h and |
142 |
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declared it locally (without bi,bj) in thsice_main.F & aim_do_physics.F; |
143 |
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changed accordingly pkg/atm2d. |
144 |
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|
145 |
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checkpoint64g (2013/05/01) |
146 |
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o pkg/exf ALLOW_RUNOFTEMP |
147 |
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- if defined, river and glacier runoff temperature can be read-in from |
148 |
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runoftempfile; runoftempfile needs to have same format as runofffile |
149 |
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o pkg/thsice (& pkg/bulk_force): |
150 |
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- In case Energy-Reference-Level (ERL) is used (temp_EvPrRn=0), account |
151 |
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for energy content of Precip + RunOff & Evap (like with pkg/exf). |
152 |
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- change computation domain to always be the interior (without overlap). |
153 |
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- fix bug (wrong overlap) when using EXF and stressReduction > 0. |
154 |
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o verification/tutorial_global_oce_biogeo: |
155 |
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- add preliminary OpenAD setup (still has problems) |
156 |
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o pkg/seaice: |
157 |
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- turn some parameters for choosing the convergence criterion of |
158 |
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the inexact Newton method (JFNK) into runtime parameters for convenience |
159 |
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- clean up seaice_calc_viscosities.F: remove/retire two options for |
160 |
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SEAICetaZmethod (1,2), introduce area weighting for method 3; this changes |
161 |
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the results of lab_sea/input because a division has been replaced by |
162 |
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a multiplication with the reciprocal (sumNorm) |
163 |
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- modify offline_exf_seaice/input.dyn_jfnk/data.seaice to improve |
164 |
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convergence of solver (changes results, of course), and to test some |
165 |
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new features |
166 |
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o model/src: |
167 |
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- remove unused (since Aug 2006) S/R SET_WRITE_GLOBAL_PICKUP and its call. |
168 |
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- remove unused forcing field "dQdT" and associated parameter "dQdTFile". |
169 |
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- move forcing adjustment (balancing surface forcing) in specific S/R |
170 |
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where might also be applied exchanges (if needed) to forcing arrays. |
171 |
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o pkg/shelfice: |
172 |
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- allow to specify the Ice-Shelf mass per unit area (instead of |
173 |
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shelficeLoadAnomaly) and do the conversion from one to the other |
174 |
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- move loading from file of shelficeLoadAnomaly from SHELFICE_INIT_VARIA |
175 |
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to SHELFICE_INIT_FIXED: (a) avoid some TAF recompution issues and |
176 |
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(b) will be loaded in time (before calling INI_PRESSURE) in case it is |
177 |
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needed in phi0surf for initial pressure calculation when useDynP_inEos_Zc |
178 |
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- update isomip experiment forward output (get machine truncation error |
179 |
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from conversion shelficeLoadAnomaly -> shelficeMass -> shelficeLoadAnomaly) |
180 |
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o verification/offline_exf_seaice: |
181 |
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revise data.seaice in input.thermo and input_ad and update results accordingly |
182 |
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HO = 0.2, SEAICE_areaLossFormula = 2, |
183 |
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SEAICE_growMeltByConv = .TRUE., |
184 |
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SEAICE_doOpenWaterMelt = .TRUE., |
185 |
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Improve consistency with input.thsice and fix the spurious 500m ice corners |
186 |
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o verification/global_ocean.cs32x15: |
187 |
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- set Energy Reference Level to liq. water @ 0 degC: temp_EvPrRn=0., |
188 |
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in icedyn (thsice+seaice-dyn) test and update output. |
189 |
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o verification/offline_exf_seaice: |
190 |
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- adjust list of tested variables (with testreport) and update |
191 |
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standard test output with better slection of monitored fields. |
192 |
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o pkg/cd_code: |
193 |
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- swtich off Adams-Bashforth on the 1rst iteration. Update output of |
194 |
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experiment lab_sea.hb87 |
195 |
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o tools/genmake2: |
196 |
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- change default makedepend from the system default to tools/xmakedepend: |
197 |
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When no makedepend is specified, select tools/xmakedepend it the test pass, |
198 |
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otherwise select the system default (if exist and pass the test) or |
199 |
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try to build cyrus-makedepend ; stop if none of the 3 works. |
200 |
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o pkg/exf & pkg/thsice: |
201 |
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- In case Energy-Reference-Level (ERL) is used (temp_EvPrRn=0), account |
202 |
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for energy content of Precip + RunOff & Evap. Assumes: |
203 |
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1) Rain has same temp as Air. |
204 |
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2) Snow has no heat capacity (consistent with seaice & thsice pkgs) |
205 |
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3) Run-Off comes at the temp of surface water (with same Cp) |
206 |
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4) Evap over ocean is released to the Atmos @ surf-temp (=SST); should be |
207 |
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put directly into Latent Heat flux & should use water-vapor heat capacity. |
208 |
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5) Evap over snow/seaice (pkg/thsice) assumes constant Lf+Lv (consistent |
209 |
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with snow having no Cp) => water vapor is released to Atmos @ 0^oC (=ERL). |
210 |
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o pkg/seaice: simplify the use of CPP flags in JFNK-related files |
211 |
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(compile when SEAICE_ALLOW_JFNK is defined) |
212 |
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o pkg/thsice: |
213 |
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- fix oceanic flux diagnostics & timeave (left from new sequence of calls |
214 |
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implementation): move THSICE_AVE call after the advection (called directly |
215 |
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from thsice_do_advect.F). |
216 |
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o verification/global_ocean.90x40x15 and OpenAD: |
217 |
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New experiment for OpenAD is identical to the one in input_ad except that |
218 |
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multiDimAdvection=.FALSE., |
219 |
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There is still an issue with this. |
220 |
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o pkg/thsice: |
221 |
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- account for ice velocity (ocean relative velocity) in turbulent heat flux |
222 |
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at the base of the ice; update output of global_ocean.cs32x15 (icedyn) |
223 |
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and offline_exf_seaice (main test). |
224 |
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|
225 |
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checkpoint64f (2013/03/31) |
226 |
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o verification/OpenAD: |
227 |
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- new (smaller, without OAD_DEBUG) output_oadm.txt generated using gfortran. |
228 |
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o verification/isomip, pkg/shelfice and OpenAD: |
229 |
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- add OpenAD setup to this exp and make shelfice package work with OpenAD |
230 |
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o verification/tutorial_global_oce_biogeo: |
231 |
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- update AD and TLM output after turning off ALLOW_FE (in DIC_OPTIONS.h) |
232 |
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o verification/offline_exf_seaice: |
233 |
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- replace adjoint experiment (now similar to fwd input.thermo/ setup). |
234 |
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o verification/tutorial_tracer_adjsens, pkg/ptracers and OpenAD: |
235 |
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- add OpenAD setup to this exp and make ptracers package work with OpenAD |
236 |
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o pkg/seaice/seaice_evp.F: |
237 |
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mask the asymmetric contribution of the ice-ocean stress (when |
238 |
|
the turningAngle is non-zero) over open water to avoid stripes |
239 |
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in the EVP-solutions after many EVP-substeps. This does not change |
240 |
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the verification experiment (because turningAngle=0 in that experiment), |
241 |
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but will affect other EVP solutions with turningAngle.ne.0 |
242 |
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o verification, AD & TLM output: |
243 |
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- new TAF version 2.3.10 (previously 2.3.8) add more parenthesis in multiple |
244 |
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additions and multiplications which affect results at machine truncation |
245 |
|
level. Update few AD output (1D_ocean_ice_column, bottom_ctrl_5x5, |
246 |
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lab_sea.noseaicedyn & offline_exf_seaice) and TLM output |
247 |
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(1D_ocean_ice_column & tutorial_tracer_adjsens.som81) which had only 12 |
248 |
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digits of matching. |
249 |
|
o pkg/seaice: |
250 |
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modify lsr-algorithm so that it vectorizes AND converges by using a |
251 |
|
"zebra" method: split vector loop into two with step size 2; this |
252 |
|
solves a general convergence problem for the JFNK solver on a vector |
253 |
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computer. It has the potential to even improve convergence for |
254 |
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non-vector machines, but it does change the results so it is turned |
255 |
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off by default. To turn on define CPP-flags SEAICE_VECTORIZE_LSR and |
256 |
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SEAICE_VECTORIZE_LSR_ZEBRA in SEAICE_OPTIONS.h |
257 |
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|
258 |
|
checkpoint64e (2013/03/05) |
259 |
|
o pkg/ecco and several verification experiments: |
260 |
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Remove special versions of the_model_main.F, the_main_loop.F, forward_step.F |
261 |
|
from ecco package, and revert to unified routine in model/src/ |
262 |
|
Adjust verification experiments accordingly, especially gloal_oce_llc90 |
263 |
|
Should conclude long-standing work by Gael to reconsile the_main_loop with |
264 |
|
ECCO and will enable OpenAD's revolve loop in ECCO setup. |
265 |
|
o pkg/generic_advdiff: |
266 |
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- implement compressible flow method for multi-dim advection (similar to |
267 |
|
gad_som_advect.F); add new option "GAD_MULTIDIM_COMPRESSIBLE" (since |
268 |
|
TAF generates many recomputations) to use it; no yet coded with implicit |
269 |
|
vertical advection. |
270 |
|
- change experiment advect_cs (new output) and advect_xy (same output) |
271 |
|
to test compressible flow multi-dim advection. |
272 |
|
o pkg/generic_advdiff: |
273 |
|
- fix SOM advection for unusual cases (linear Free-Surf in r*, other |
274 |
|
cases where linear Free-Surf is not @ k=1, e.g., useShelfIce) |
275 |
|
o pkg/seaice: |
276 |
|
- fix bug in the no-slip implementation in seaice_calc_strainrates.F, this |
277 |
|
bug affects two verification experiments (lab_sea and lab_sea.hb87), |
278 |
|
recover old (wrong) results by setting noSlipFac = 2. in |
279 |
|
seaice_calc_strainrates.F; |
280 |
|
- add another averaging method for etaZ (etaZmethod=3), a mix of 2 and 0 |
281 |
|
- add runtime parameter SEAICE_JFNKepsilon for that finite difference |
282 |
|
gradient in the Jacobian times vector operation (s/r seaice_jacvec) |
283 |
|
- fix line search in seaice_jfnk.F (s/r seaice_jfnk_update) |
284 |
|
o pkg/seaice: reorganize seaice_lsr.F to be able to reuse more code: |
285 |
|
- new subroutines seaice_lsr_tridiagu/v |
286 |
|
- introduce loop bounds i/jmin/max to be able to use a restricted |
287 |
|
additive Schwarz method, but not used for now. |
288 |
|
- rename SEAICE_CALC_LSR_COEFFS into SEAICE_LSR_CALC_COEFFS |
289 |
|
- use new subroutines seaice_lsr_tridiagu/v in s/r seaice_preconditioner |
290 |
|
o OpenAD support |
291 |
|
Reorganize S/R call for overall time-stepping loop to facilitate |
292 |
|
OpenAD revolve loop replacement |
293 |
|
(new S/R main_do_loop.F) |
294 |
|
o model/src: |
295 |
|
- add 3-D array 3rd dimension to argument list of S/R ADAMS_BASHFORTH2/3; |
296 |
|
- pkg/cheapaml: remove local S/R ADAMS2d and use instead standard S/R |
297 |
|
ADAMS_BASHFORTH2. |
298 |
|
o pkg/cheapaml: |
299 |
|
- add new parameter (default=F, same as before) to disable full domain |
300 |
|
(including land) periodicity in X & Y dir. |
301 |
|
- new S/R CHEAPAML_COPY_EDGES to copy relaxation field into edges of |
302 |
|
prognostics field ; merge the 2 S/R cycle_2d_tracer and timestep_2d_tracer |
303 |
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into single S/R CHEAPAML_TIMESTEP. |
304 |
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|
305 |
|
checkpoint64d (2013/02/17) |
306 |
|
o pkg/monitor (angular momentum): |
307 |
|
- do not add Eta contribution to the total AM if using rigid-lid; |
308 |
|
- correct for Adams-Bashforth in zonal-wind part (instead of in AM_eta). |
309 |
|
- horizontal discretisation: compute Zonal wind contribution separately for |
310 |
|
each component (instead of from cell centered averaged) and use the 4 |
311 |
|
grid-cell corner averaged value of Omega*(R*cos_Phi)^2 in AM_eta part. |
312 |
|
- Check that AM is conserved with linear dynamics (momAdvection=F and linear |
313 |
|
FreeSurf) if using vectorInvariant momentum. |
314 |
|
o model/src (horizontal grid): |
315 |
|
- move initialisation of all horizontal grid arrays to null value |
316 |
|
from specific horizontal grid S/R to main S/R INI_GRID; |
317 |
|
- add 2 new arrays to project model C-grid velocity on to zonal direction |
318 |
|
(similar to AngleCosC & -AngleSinC but at U and V point location) and |
319 |
|
compute them in S/R CALC_GRID_ANGLES. |
320 |
|
o pkg/seaice: replace a hard coded parameter by a runtime parameter |
321 |
|
SEAICE_JFNK_tolIter |
322 |
|
o pkg/seaice: introduce a restricted additive Schwarz (RAS) method in |
323 |
|
preconditioner for JFNK (run LSR into the overlaps as far as possible, |
324 |
|
i.e OLx/y-2, but overwrite the solution in the overlaps) |
325 |
|
- extend loop range in seaice_calc_viscosity |
326 |
|
- add new parameters SEAICE_OLx/y (default = OLx/y-2) |
327 |
|
- add flexible loop ranges to seaice_preconditioner, seaice_calc_lsr_coeffs |
328 |
|
- slightly modify loops in tridiagonal solver lsr-preconditioner |
329 |
|
- by default remove the extra exchange in seaice_preconditioner with a |
330 |
|
replacement of an undocumented CPP flag by SEAICE_PRECOND_EXTRA_EXCHANGE |
331 |
|
- modify offline_exf_seaice so that old results without RAS are reproduced |
332 |
|
for output.dyn_jfnk.txt |
333 |
|
in seaice_fgmres.F (unrelated to RAS) |
334 |
|
- add a cpp-flag option for a re-ordered mapping (potentially more |
335 |
|
efficient), but because this changes the results, turn it off by |
336 |
|
default |
337 |
|
- replace the save statement by local common blocks |
338 |
|
o utils/matlab: |
339 |
|
- fix tile-offset in rdmnc.m when output was produced using EXCH2. |
340 |
|
- update cs_grid/bk_line scripts to use load_grid.m (in utils/matlab) |
341 |
|
instead of local script "load_cs.m". |
342 |
|
o pkg/seaice: |
343 |
|
- fix a serious bug in seaice_fgmres.F, s/r seaice_scalprod, connected |
344 |
|
to the scalarProductMetric and the unrolling. By chance this does not |
345 |
|
change the verification experiment, because of the particular domain |
346 |
|
decomposition |
347 |
|
o pkg/diagnostics: |
348 |
|
- change default missing_value from UNSET_RL to -999. |
349 |
|
o pkg/layers: improve vectorization of layers_fluxcalc.F |
350 |
|
- step 1: split loops, make TatU/V 2D arrays. This alone reduces the cpu |
351 |
|
time spent in this routine by more than a factor of 3 on an NEC-SX8 |
352 |
|
- step 2: replace search algorithm by a bisection algorithm found in |
353 |
|
Press et al. Numerical Recipes in Fortran. This algorithm can be |
354 |
|
vectorized and finds the correct bin in approx. log2(Nlayers) steps. |
355 |
|
For now, use this algorithm only for TARGET_NEC_SX defined. |
356 |
|
- moved the search algorithm into a separate subroutine, that is kept |
357 |
|
within the same file for automatic inlining. |
358 |
|
- modified catching potential errors |
359 |
|
o pkg/ecco: |
360 |
|
- add compile switches ALLOW_SHALLOW_ALTIMETRY and ALLOW_HIGHLAT_ALTIMETRY. |
361 |
|
o model/src, pkg/autodiff, pkg/ctrl, pkg/grdchk : |
362 |
|
- modifications for ALLOW_GENTIM2D_CONTROL |
363 |
|
-- forward_step.F, the_main_loop.F : pass options and arrays for adjoint tapes. |
364 |
|
-- load_fields_driver.F : add call to CTRL_MAP_GENTIM2D( myTime, myIter, myThid ) |
365 |
|
-- add xx_gentim2d0/1 in ctrl_ad_check_lev1_dir.h checkpoint_lev1_directives.h etc |
366 |
|
-- use ctrl_swapffields.F (new) instead of exf_SwapFFields.F in ctrl_get_gen.F |
367 |
|
o model/src: |
368 |
|
- account for moist thermodynamics in (dry) potential temperature equation; |
369 |
|
update results of experiments: aim.5l_cs (x2), fizhi-cs (std + aqualev) |
370 |
|
and cpl_aim+ocn. |
371 |
|
- also switch to standard compiler (gfortran, was using ifort previously) |
372 |
|
for fizhi-cs experiments reference output. |
373 |
|
o pkg/ctrl: |
374 |
|
- 1st step toward generic time-varying control variable (2D) via CPP option |
375 |
|
ALLOW_GENTIM2D_CONTROL |
376 |
|
- note new namelist ctrl_nml_genarr in data.ctrl |
377 |
|
o verification/global_ocean.cs32x15: |
378 |
|
- switch off OLD_THSICE_CALL_SEQUENCE (both forward and AD code) to use new |
379 |
|
thsice calling sequence and update "output.icedyn.txt" output file. |
380 |
|
o pkg/ptracers: |
381 |
|
- from Ryan A.: code to allow to restart a tracer at regular time interval |
382 |
|
specifying a reset frequency and a reset-phase (for each tracers). |
383 |
|
o pkg/thsice: |
384 |
|
- implement new sequence of calls for thsice+seaice: |
385 |
|
previously: ice-Dyn,ice-Advect,ice-Thermo(thsice) |
386 |
|
new sequence: ice-Thermo(thsice),ice-Dyn,ice-Advect |
387 |
|
- allows (with temporary CPP option "#define OLD_THSICE_CALL_SEQUENCE" |
388 |
|
in CPP_OPTIONS.h) to recover old sequence; |
389 |
|
- update diagnostics for Intermediate State thsice diagnostics: now filled |
390 |
|
just before advection (instead of just after advection in old sequence); |
391 |
|
- update output of experiment offline_exf_seaice (standard test); |
392 |
|
- in global_ocean.cs32x15 exp., postpone output.icedyn.txt update |
393 |
|
by setting #define OLD_THSICE_CALL_SEQUENCE in CPP_OPTIONS.h |
394 |
|
o pkg/aim_v23: |
395 |
|
- use tiled array for aim_CO2 and surface wind speed for export to coupler; |
396 |
|
- use standard pkg/mdsio routines to read & write CO2 pickup file; |
397 |
|
- in-line S/R AIM_AIM2DYN_EXCHANGES in aim_do_physics.F; |
398 |
|
- Implement new sequence of calls for seaice advection (with thsice and |
399 |
|
seaice diffusion): do ice advection after ice-Thermodynamic (previously |
400 |
|
was done before); change aim_do_physics.F (split the bi,bj loops block); |
401 |
|
- use same CPP option (OLD_THSICE_CALL_SEQUENCE) to recover old sequence; |
402 |
|
o pkg/thsice: |
403 |
|
- add a missing EXCH of sIceLoad in thsice_main.F (ocean set-up) for the case |
404 |
|
where just seaice diffusion is used without seaice-dynamics. |
405 |
|
|
406 |
|
checkpoint64c (2013/01/18) |
407 |
|
o pkg/seaice: |
408 |
|
- add a parameter JFNKres_tFac that can replace JFNKres_t |
409 |
|
(= JFNKres_tFac*JFNKresidual before JFNK solver) |
410 |
|
- add a line search option to the JFNK solver |
411 |
|
- move update of u/vIce and computation of initial residual into a separate |
412 |
|
routine (same file); makes the code a little easier to read (?) |
413 |
|
- the line search requires computation of the residual and for some reason |
414 |
|
I cannot do the update of u/vIce at the beginning of the Newton loop |
415 |
|
without changing the results, so we move computation of the new residual |
416 |
|
also to the end of the Newton loop, even without the line search |
417 |
|
o pkg/mdsio: |
418 |
|
- write missing value (corresponding to undefined array value) to meta files; |
419 |
|
skip this if missing value is one (UNSET_RL would be a better value for the |
420 |
|
case of undefined missing value but it's current the default missing-value); |
421 |
|
Also update mdsio_read_meta.F (reading timeInterval & missing-value). |
422 |
|
o pkg/exf & thsice: |
423 |
|
- for diagnostics purpose, fill-up and update Qsw array (+ fill the |
424 |
|
diagnostics) even when SHORTWAVE_HEATING is #undef; |
425 |
|
o verification/cfc_example: |
426 |
|
- turn on pkg/layers with pkg/diagnostics (to test pkg/layers and to |
427 |
|
illustrate how to use it). |
428 |
|
o verification/offline_exf_seaice: |
429 |
|
in input: add SEAICErestoreUnderIce=.TRUE., and reduce size of forcing |
430 |
|
files to only one time-record. |
431 |
|
in input.thermo: narrow the 2 bands of low initial ice-concentration near |
432 |
|
N & S edges; switch on SEAICErestoreUnderIce=T; use pkg/diagnostics for |
433 |
|
snapshot output; same mcPheePiston value as in thsice with |
434 |
|
surf-current=0.2m/s. |
435 |
|
in input.thsice: similar set-up as in input.thermo (channel with same seaice |
436 |
|
initial conditions). |
437 |
|
o verification/cfc_example: |
438 |
|
- update file "data" with more standard choice (default rotationPeriod, |
439 |
|
exactConserv=T, reduce ivdc_kappa to 10, remove multiDimAdvection=F, |
440 |
|
set deltaTFreeSurf to deltaTtracer) and update the output. |
441 |
|
o pkg/layers: |
442 |
|
- fix bolus part so that it compiles with #undef GM_BOLUS_ADVEC; |
443 |
|
- ensure that "layers_bolus" is switched to False when useGMRedi=False. |
444 |
|
o verification/offline_exf_seaice: |
445 |
|
- set all {field}period to zero for constant-in-time forcing (not tested |
446 |
|
anywhere else). |
447 |
|
o verification/offline_exf_seaice: |
448 |
|
- dyn_lsr : use pkg/seaice S/R (instead of pkg/thsice) to advect sea-ice; |
449 |
|
- dyn_jfnk : use pkg/thsice S/R (instead of pkg/seaice) to advect sea-ice. |
450 |
|
o model/src: |
451 |
|
- implement Finite-Volume method for (hydrostatic) presure gradient |
452 |
|
from S.-J. Lin (QJRMS 1997), for atmosphere using sigma-coordinate. |
453 |
|
o pkg/seaice: implement EVP* by Lemieux et al. (2012). |
454 |
|
- In order to be compatible with the default EVP code, this requires changing |
455 |
|
the EVP code around a little; and because any small change immediately |
456 |
|
breaks the lab_sea.hb87 verification experiment, the reference output is |
457 |
|
updated two times (each time the remaining aggrement was only 2 digits): |
458 |
|
- after replacing 1/dt by 1*recip_dt with a precomputed recip_dt |
459 |
|
- after replacing 1/(1+0.5*dt/tau) by a/(a+1), with a=2*tau/dt |
460 |
|
The adjoint test lab_sea.evp also needed to be updated. |
461 |
|
- Turn on EVP* by setting SEAICE_deltaTevp as before, and setting |
462 |
|
SEAICEuseEVPstar=.true.; for EVP* SEAICE_deltaTevp does not need to be |
463 |
|
a factor of SEAICE_deltaTdyn, and you can set the number of EVP steps |
464 |
|
explicitly with SEAICEnEVPstarSteps (thereby overriding the default of |
465 |
|
INT(SEAICE_deltaTdyn/SEAICE_deltaTevp)). Controlling EVP* is deliberately |
466 |
|
kept obscure, because I need to test it a little more. |
467 |
|
o pkg/cheapaml: |
468 |
|
- fix few incorrect type (_RL/_RS) in subroutine calls. |
469 |
|
o pkg/seaice: |
470 |
|
- new S/R SEAICE_MAP_RS2VEC (similar to SEAICE_MAP2VEC) to map _RS arrays |
471 |
|
to _RL vector; this fixes JFNK code when compiling with "-use_r4" option. |
472 |
|
o model/src: |
473 |
|
- add a warning if using select_rStar=2 with nonlinFreeSurf <> 4; |
474 |
|
change (in input_ad*/data) select_rStar from 2 to 1 for AD verification |
475 |
|
experiments global_ocean.cs32x15 & tutorial_tracer_adjsens (+ update output) |
476 |
|
o pkg/cheapaml: |
477 |
|
- replace "273.1 _d 0" by celsius2K in pkg/cheapaml/cheapaml.F and |
478 |
|
update output of experiment cheapAML_box. |
479 |
|
- store in CHEAPAML.h coeffs ssq[0:2] for saturation specific humidity, |
480 |
|
and set them only in one place (cheapaml_readparms.F). |
481 |
|
- replace "273.16 _d 0" by celsius2K & replace "3.14159 _d 0" by constant "PI" |
482 |
|
- remove re-setting of main-model parameter "celsius2K" (in cheapaml_readparms) |
483 |
|
and re-setting of cheapAML params "lath" & "p0" (in cheapaml_init_varia). |
484 |
|
o model/src/the_main_loop.F: |
485 |
|
- fix revision 129 : need both ALLOW_ECCO and ALLOW_ECCO_EVOLUTION. |
486 |
|
o pkg/seaice: |
487 |
|
- remove legacy branch code. |
488 |
|
- retire SEAICE_GROWTH_LEGACY and SEAICE_CAP_HEFF accordingly. |
489 |
|
o verification/*/code*/SEAICE_OPTIONS.h: |
490 |
|
- remove documentation for retired CPP flags (SEAICE_GROWTH_LEGACY, |
491 |
|
SEAICE_CAP_HEFF). |
492 |
|
o pkg/cheapaml: |
493 |
|
- use standard routine (S/R GET_PERIODIC_INTERVAL) to decide when it is time |
494 |
|
to load new forcing fields. |
495 |
|
- add missing "_d 0" where it's needed; + some editing (improve indentation). |
496 |
|
- remove switch to "-r8" compiler option (no longer needed) in verification |
497 |
|
cheapAML_box, keep same output (small trucation error differences). |
498 |
|
o verification/offline_exf_seaice: |
499 |
|
- add thermodynamics only test. |
500 |
|
o verification/cheapAML_box: |
501 |
|
- split the domain in 8 (2x4) tiles; add MPI and multi-threaded test; |
502 |
|
keep same output (same 14 digits for cg2d). |
503 |
|
- switch on "-r8" compiler option (some numerical values are missing |
504 |
|
the "_d 0") and update output (only 6 digits for cg2d were preserved). |
505 |
|
|
506 |
|
checkpoint64b (2012/12/24) |
507 |
|
o pkg/cheapaml: |
508 |
|
- remove un-used variables (Qnet,EmPmR) from pickup files. |
509 |
|
- store tendency of advected variables into cheapaml pickup file |
510 |
|
and fix the AB-2 restart. |
511 |
|
o verification/offline_exf_seaice and lab_sea adjoint: |
512 |
|
- switch to new code (#undef SEAICE_GROWTH_LEGACY). |
513 |
|
- switch to 4 time steps in offline, consistent with lab_sea. |
514 |
|
- match parameters from SEAICE_GROWTH_LEGACY branch in data.seaice. |
515 |
|
- update results after change of experiment seaice. |
516 |
|
o pkg/seaice: |
517 |
|
- remove option SEAICE_MULTICATEGORY; has been replaced with run-time |
518 |
|
parameter SEAICE_multDim. Issue a warning if SEAICE_MULTICATEGORY is |
519 |
|
still defined since SEAICE_multDim needs to be set to MULTDIM value (from |
520 |
|
SEAICE_SIZE.h) to recover previous #define SEAICE_MULTICATEGORY default. |
521 |
|
o model/src: |
522 |
|
- add run-time parameter to select CG2D solver minimum-residual solution |
523 |
|
(in case of a poor convergence). |
524 |
|
o pkg/seaice/seaice_lsr.F |
525 |
|
- move calculation of matrix coefficients into new |
526 |
|
S/R SEAICE_CALC_LSR_COEFFS; for now this routine remains in the same |
527 |
|
file; the main purpose of this change is to be able to reuse the code |
528 |
|
in S/R SEAICE_PRECONDITIONER |
529 |
|
- modify the computation of the residual so that the mass of sea-ice |
530 |
|
is not used twice; this simplifies the calculations, but since |
531 |
|
the residual is never used except when LSR_mixIniGuess.ge.4---and this is |
532 |
|
not tested in testreport---this does not affect the testreport results. |
533 |
|
o verification/seaice_obcs: |
534 |
|
- disable SEAICE_GROWTH_LEGACY; reset input files to match those of |
535 |
|
verification/lab_sea/input.salt_plume; changes results/output.txt* |
536 |
|
o model/src: |
537 |
|
- adapt quasi-hydrostatic formulation to work with p or p* coordinate. |
538 |
|
o pkg/seaice: |
539 |
|
- improve description of parameters in seaice_fgmres.F and start |
540 |
|
cleaning up the code |
541 |
|
- change name of SCALPROD to SEAICE_SCALPROD and modify meaning of |
542 |
|
second argument |
543 |
|
- add a metric based on grid cell area to SEAICE_SCALPROD; update |
544 |
|
results of offline_exf_seaice.dyn_jfnk |
545 |
|
- compute initial residual norm in seaice_jfnk based on SEAICE_SCALPROD |
546 |
|
o pkg/aim_v23: |
547 |
|
- fix an other bug in dissipation heating (grid-cell area was missing). |
548 |
|
o model/src + pkg/seaice: |
549 |
|
- add global (multi-tile) linear solver for pair of tri-diagonal system |
550 |
|
along X and Y lines, respectively for U and V component. |
551 |
|
Note: 1) MPI and cube-exchange not yet coded. |
552 |
|
2) probably not accurate for poorly conditioned / large size problem. |
553 |
|
- add option for SEAICE_LSR to use global (multi-tile) tri-diagonal solver; |
554 |
|
default: not compiled and not used. |
555 |
|
o pkg/seaice: |
556 |
|
- first attempt at a multi-threaded fgmres solver for the JFNK solver: |
557 |
|
introduce bi/bj loops and use global_sum_tile_rl instead of |
558 |
|
mpi_allreduce in seaice_fgmres.F |
559 |
|
- improve diagnostics output for fgmres solver (seaice_fgmres.F) |
560 |
|
- replace a few unnecessary goto statements by if-blocks (seaice_fgmres.F) |
561 |
|
- add a verification experiment for JFNK in offline_exf_seaice |
562 |
|
o verification: |
563 |
|
- change (for now, only fwd test) offline_exf_seaice experiment: |
564 |
|
use a re-entrant channel with idealized coastline (trapezoidal shape) |
565 |
|
at southern boundary to explore seaice dynamics and thermodynamics |
566 |
|
with simple forcing. Main set-up has dynamics+thermo and SST relaxation; |
567 |
|
secondary test (input.thsice) use thermodynamics only with SST relaxation. |
568 |
|
- add seaice-dynamics only secondary test using LSR and pkg/thsice advection. |
569 |
|
o pkg/exf: |
570 |
|
- disable "sstExtrapol" when Nr=1 |
571 |
|
o verification: |
572 |
|
- add new experiment "cheapAML_box" (simple 1 layer set-up from Bruno Deremble) |
573 |
|
to test pkg/cheapaml. |
574 |
|
o pkg/aim_v23 & pkg/shap_filt: |
575 |
|
- fix dissipation heating (erroneous gravity multiplication factor). |
576 |
|
o pkg/seaice: |
577 |
|
- remove unused field pressPre from jfnk solver |
578 |
|
- rename two subroutines in seaice_preconditioner.F |
579 |
|
o eesupp/src: |
580 |
|
- S/R MDSFINDUNIT avoids reserved unit numbers (scrUnit1, eeDataUnit ...) |
581 |
|
o pkg/seaice/seaice_preconditioner.F: fix preconditioner once again |
582 |
|
- remove wrong parts of the rhs and the lhs (were in there |
583 |
|
because I did not understand the concept of this preconditioner) |
584 |
|
- add an exchange between u- and v-sweep. This increases communication |
585 |
|
by a factor of two but improves the convergence of jfnk. Ideally, |
586 |
|
one would like the u- and v-sweep to be independent. So far within |
587 |
|
undocumented ifdefs |
588 |
|
- reorganize the extra computations for printing the residuals |
589 |
|
o tools/genmake2: |
590 |
|
- comment out the "mpif.h" include in NetCDF test programm (for MPI built) |
591 |
|
since it's not necessary (and was preventing to use MNC in some cases). |
592 |
|
|
593 |
|
checkpoint64a (2012/11/16) |
594 |
|
o pkg/autodiff: |
595 |
|
- improve pkg-internal logical parameter switch (inAd/inFwd mode) so that |
596 |
|
autodiff_readparms.F no longer depends on calling order (within |
597 |
|
packages_readparms.F) and no longer requires to include ${PKG}_PARMS.h): |
598 |
|
rename param turnFreeDriftInAdMode to SEAICEuseFREEDRIFTswitchInAd |
599 |
|
and change param SEAICEuseDYNAMICSinAdMode to SEAICEuseDYNAMICSswitchInAd. |
600 |
|
o pkg/obcs: |
601 |
|
- adding tidal velocity forcing capability to obcs |
602 |
|
for usage example, see verification/seaice_obcs/input.tides |
603 |
|
o pkg/seaice: |
604 |
|
- turn the LSR-relaxation parameters WFAU/V into runtime parameters |
605 |
|
SEAICE_LSRrelaxU/V |
606 |
|
- introduce runtime parameter SEAICEetaZmethod (=0 by default) |
607 |
|
o pkg/aim_v23: |
608 |
|
- implement heating from friction (bottom friction and stratospheric drag). |
609 |
|
o pkg/shap_filt: |
610 |
|
- fix diagnostic "SHAP_dKE" (was 2 time smaller); implement heating from |
611 |
|
dissipation but only for Shap_funct=2, active when addFrictionHeating=T. |
612 |
|
o model/src: |
613 |
|
- move AddMass common block from DYNVARS.h to FFIELDS.h; allow to read-in |
614 |
|
time-constant addMass field from file (addMassFile); |
615 |
|
- support for heating due to friction (and Kinetic Energy dissipation): |
616 |
|
add option, run-time switch and 3-D field array + support code ; each pkg |
617 |
|
or S/R can add heating contribution (if there is a sink of KE); the sum is |
618 |
|
accounted for as a Temperature tendency term (EXTERNAL_FORCING_T). |
619 |
|
o pkg/seaice: |
620 |
|
- complete merge of ITD code into seaice_growth.F |
621 |
|
from MITgcm_contrib/torge/itd/code/ |
622 |
|
no verification so far, but Torge Martin tested |
623 |
|
"1-D test case and Beaufort set up; |
624 |
|
deliver okay results after 1 model year." |
625 |
|
- complete merge of SEAICE_SIZE.h into all relevant routines |
626 |
|
- move computation of eta at Z-points into calc_viscosities |
627 |
|
+ introduce global field etaZ |
628 |
|
+ add different methods for computing etaZ, for now the old |
629 |
|
method (simple averages of eta to Z-points) is hardwired |
630 |
|
+ replace etaMeanZ by etaZ in seaice_lsr, seaice_calc_residual, |
631 |
|
seaice_preconditioner |
632 |
|
- simplify computations for SEAICE_ZETA_SMOOTHREG |
633 |
|
- seaice_preconditioner: |
634 |
|
+ replace one remaining press by pressLoc (mistake) |
635 |
|
+ adjust printing of residuals |
636 |
|
- improve I/O of diagnostics of JFNK in seaice_jfnk.F: |
637 |
|
+ add (SEAICE.h) and rename some counters (initiliased in |
638 |
|
seaice_init_fixed.F) |
639 |
|
+ add _BEGIN/END_MASTER (myThid) around print statements |
640 |
|
+ print total number of iterations and failures over SEAICE_monFreq |
641 |
|
interval to STDOUT |
642 |
|
- move control over output-messages by fgmres to seaice_jfnk to save |
643 |
|
some operations |
644 |
|
- move resetting initial guess for fgmres outside of seaice_fgmres_driver |
645 |
|
in order to make restarts with sol .ne. zero (fgmres with restarts) |
646 |
|
(seaice_jfnk.F, seaice_fgmres.F) |
647 |
|
- seaice_calc_l/rhs.F: replace maskW/S by maskInW/S; this fixes |
648 |
|
a serious convergence problem when open boundaries are involved |
649 |
|
o pkg/ggl90: fix computation of control volumes for the case of |
650 |
|
ALLOW_GGL90_HORIZDIFF (probably not used very often): move control volumes |
651 |
|
up half a grid cell from C-centered to W-centered (pointed out by C. Eden) |
652 |
|
o pkg/seaice: simplify seaice_evp by avoiding use of extra fields u/vIceC |
653 |
|
o pkg/autodiff |
654 |
|
- Add inAdMode switch for SEAICEuseDYNAMICS: |
655 |
|
SEAICEuseDYNAMICSinAdMode |
656 |
|
(extend logic in ADAUTODIFF_INADMODE_SET) |
657 |
|
o pkg/seaice |
658 |
|
- Step 1 of merging ice-thickness distribution (ITD) code from |
659 |
|
MITgcm_contrib/torge/itd/ (author: Torge Martin) |
660 |
|
The code implements concept laid out in Thorndike et al. (1975); |
661 |
|
code is enabled via CPP flag SEAICE_ITD |
662 |
|
nITD (in SEAICE_SIZE.h) defines number of ice thickness categories; |
663 |
|
code is not complete yet!! |
664 |
|
- SEAICE_SIZE.h now included in almost all seaice routines |
665 |
|
o verification (using seaice): |
666 |
|
- switch back seaice-dynamics (+ lower SOLV_MAX_ITERS) in ADM exp. |
667 |
|
global_ocean.cs32x15.seaice ; update results. |
668 |
|
- compile B-grid dynamics in FW test exp 1D_ocean_ice_column ; |
669 |
|
- compile C-grid dynamics with #define SEAICE_ALLOW_JFNK in FW test exp |
670 |
|
offline_exf_seaice (previously compiling B-grid). |
671 |
|
o pkg/exf: |
672 |
|
- fix some STOP conditions in exf_check.F (from Aug 28, modifs did not allow |
673 |
|
to specify neither just 1 comp of wind or wind-stress, nor no surface momentum |
674 |
|
forcing): just replace CPP option ALLOW_ATM_WIND with run-time param useAtmWind. |
675 |
|
o pkg/layers (adjust changes from Sept 19): |
676 |
|
- do snap-shot output and fill diagnostics from inside iLa loop (layers_calc.F) |
677 |
|
this allows to remove "layers_maxNum" dimension from all layers arrays. |
678 |
|
o pkg/layers (adjust changes from Sept 19): |
679 |
|
- remove ALLOW_LAYERS_OUTPUT ; fix snap-shot and time-ave output ; |
680 |
|
- snap-shot extended to all type of layers (not just the 1rst type); |
681 |
|
- remove layers variables when corresponding CPP option is undef. |
682 |
|
o pkg/layers: |
683 |
|
- rename pkg/layers variable and add new output (layer exist & un-weighted |
684 |
|
velocity in layer) |
685 |
|
o pkg/seaice: |
686 |
|
- simplify (?) ocean-drag coefficent computations by using |
687 |
|
the same routine in all three solvers (saves some code lines) |
688 |
|
- remove global fields DRAGA and DRAGS from C-grid code and |
689 |
|
declare them locally in lsr.F (the only place where they are |
690 |
|
still used) |
691 |
|
- update AD output of lab_sea.evp (very sensitive anyway). |
692 |
|
o pkg/seaice: add Jacobian-free Newton Krylov solver for ice dynamics |
693 |
|
(Lemieux et al. 2010, 2012). Turn on with the usual SEAICE_ALLOW_JFNK |
694 |
|
and SEAICEuseJFNK=.true. A few things to note: |
695 |
|
- involves a FGMRES, that is parallel but very inefficient, |
696 |
|
because of many scalar products (global sums) in the Gram-Schmidt |
697 |
|
orthogonalization method. Needs to be replaced. Original code |
698 |
|
from J.-F. Lemieux |
699 |
|
- preconditioner for FGMRES is a stripped down version of LSOR |
700 |
|
- SOLV_MAX_ITERS is now used for LSOR as a solver and as a |
701 |
|
preconditioner. For the preconditioner, the default is set to 10. |
702 |
|
- Jacobian times vector is computed with finite differences |
703 |
|
- marginally related to JFNK-solver: add a smooth regularization for |
704 |
|
zeta with tanh that will improve convergence (Lemieux and Tremblay, |
705 |
|
2009) for any implicit solver (not implemented for EVP because EVP |
706 |
|
does not need this regularization in the first place). Define |
707 |
|
SEAICE_ZETA_SMOOTHREG in SEAICE_OPTIONS.h to use. |
708 |
|
o eesupp/src: |
709 |
|
- check in genmake2 that intrinsic S/R flush is available. |
710 |
|
- add S/R to flush IO unit (if intrinsic S/R flush is available) |
711 |
|
- flush standard & error msg unit before MPI termination |
712 |
|
- if debugMode, flush IO unit after printing msg |
713 |
|
o pkg/ctrl: |
714 |
|
- ctrl_unpack.F, ALLOW_GENARR3D_CONTROL code: fix missing argument in call |
715 |
|
to ctrl_set_unpack_xyz. |
716 |
|
|
717 |
|
checkpoint64 (2012/10/09) |
718 |
|
o pkg/shelfice |
719 |
|
- in mom_fluxform.F, mom_vecinv.F: |
720 |
|
CALL SHELFICE_V_DRAG(bi,bj,k,vFld,KE,KappaRU,vF,myThid) |
721 |
|
Bug fix KappaRU -> KappaRV |
722 |
|
does not change verification/isomip but may change other setups |
723 |
|
(presumably constant KappaRU=KappaRV) |
724 |
|
- fix diagnostics SHIU/Vdrag (thanks to Tom Millgate) |
725 |
|
o pkg/obcs: |
726 |
|
- fixed some indexing bugs in obcs_seaice_sponge.F |
727 |
|
- added obcs relaxation subroutines for HSALT and HSNOW |
728 |
|
- changes verification/seaice_obcs/results/obcs_seaice_sponge.F |
729 |
|
o pkg/seaice: |
730 |
|
- add "multicategory" parameterization for snow in analogy to ice, |
731 |
|
default is off for now. |
732 |
|
o pkg/obcs: |
733 |
|
- added obcs_seaice_sponge.F for obcs relaxation of seaice variables; |
734 |
|
see verification/seaice_obcs/input.seaiceSponge for example application. |
735 |
|
- remove local commom bloc "OBCS_GLOBAL" in obcs_readparms.F and do all the OB |
736 |
|
index setting by master-thread. This fix multi-threads Pb in previous modifs. |
737 |
|
o pkg/layers : |
738 |
|
- add diagnostics to pkg/layers |
739 |
|
- move the meat of pkg/layers from layers_calc.F to layers_fluxcalc.F |
740 |
|
(from R.Tulloch). Layers_calc.F now calls layers_fluxcalc.F accordingly. |
741 |
|
o pkg/generic_advdiff/gad_implicit_r.F : |
742 |
|
- fix ADVr diagnostics in case of both implicit vertical advection and diffusion. |
743 |
|
o pkg/seaice/seaice_growth.F: |
744 |
|
- fix SItflux diagnostics in virtual salt flux + balanceEmpmr case. |
745 |
|
o pkg/obcs: |
746 |
|
- change default setting of OBCS_UVICE_OLD from defined to undef; |
747 |
|
- use new parameter OB_indexNone for null index value (instead of hard-coded 0) |
748 |
|
in all pkg/obcs code and in other pkgs; remove k loop in obcs_check_depths.F; |
749 |
|
- pass OB_indexNone as (new) argument to S/R CTRL_MASK_SET_[X,Y]Z; |
750 |
|
- change OB null index value (OB_indexNone) to -99 ; this fix the problem |
751 |
|
with Southern & Western OB at a tile edge (at least in a simple set-up). |
752 |
|
o pkg/obcs: |
753 |
|
- change settings of OB index in case OB coincides with tile edge (shared by |
754 |
|
2 tiles), so that common OB location is registered by both tiles (instead of |
755 |
|
only 1). However, for Southern and Western OB, index value = 0 is not |
756 |
|
recognized as valid OB index (=default null value) and needs to be fixed. |
757 |
|
- modify accordingly OBCS_BALANCE_FLOW and OBCS_MONITOR (avoid double counting) |
758 |
|
- new parameter "OB_indexNone" for null index value (for now, still zero) |
759 |
|
to replace hard-coded null index value of zero. |
760 |
|
o pkg/exch2: |
761 |
|
- improve W2_USE_E2_SAFEMODE (faster) and W2_E2_DEBUG_ON: |
762 |
|
always check buffer-size (but outside the loop); move checking for valid |
763 |
|
index from W2_USE_E2_SAFEMODE to W2_E2_DEBUG_ON; in W2_E2_DEBUG_ON, |
764 |
|
print each tile and point connection only if |W2_printMsg|>= 2 and 3. |
765 |
|
o pkg/ctrl (pack & unpack): |
766 |
|
- in ctrl_pack.F & ctrl_unpack.F, use the same local file-name variable |
767 |
|
(locally defined) for different variables (+ remove the variable-specific |
768 |
|
file name in CTRL_GENARR.h). For now, only implemented for GENARR2/3D_CONTROL |
769 |
|
(to be extended to other local file names in ctrl.h). |
770 |
|
o pkg/flt: |
771 |
|
- add a FLT_Iter0 option (similar to PTRACERS_Iter0). |
772 |
|
o pkg/mdsio: |
773 |
|
- fix missing STOP in mdsio_readvec_loc.F (case ioUnit=0) when file is missing |
774 |
|
o tools/genmake2: |
775 |
|
- add similar dependences for target EXE_AD & EXE_FTL as we have for EXECUTABLE |
776 |
|
(added by Alistair in version 1.51 for building without make depend); |
777 |
|
- remove Header files list (H_SRC_FILES) from the dependence of targets |
778 |
|
ad_input_code.f & ftl_input_code.f (not clear why it was added in the first |
779 |
|
place in version 1.23): this save going through staf when unrelated header |
780 |
|
file has been modified. |
781 |
|
Note: for an intermediate target (e.g., ad_input_code.f or adtaf) without |
782 |
|
"make depend" step, still need to do "make links" before "make adtaf". |
783 |
|
o eesupp/src (+ few pkg src files) & genmake2: |
784 |
|
- finish to remove ALWAYS_USE_MPI in source code that TAF does not see; |
785 |
|
- no longer set ALWAYS_USE_MPI in Makefile (was done by genmake2). |
786 |
|
- improve genmake2 checking for ALLOW_${PKG} in CPP_OPTIONS.h files (distinguish |
787 |
|
upper/lower case ; account for space between "#" and undef/define) |
788 |
|
o pkg/flt (with exch2): |
789 |
|
- cleaning: fix so that it compiles; move remaining MPI calls out of flt_exch2.F; |
790 |
|
- simplify threads synchronisation; fix (many issues) multi-threaded with MPI. |
791 |
|
|
792 |
|
checkpoint63s (2012/09/05) |
793 |
|
o pkg/ecco: |
794 |
|
- remove #ifdef ALLOW_SMOOTH_CORREL3D brackets. |
795 |
|
- add more relevant #ifdef ALLOW_SMOOTH ones. |
796 |
|
- sort out useAtmWind, useSMOOTH, ctrlSmoothCorrel2D. |
797 |
|
o pkg/ctrl: |
798 |
|
- CTRL_OPTIONS.h : document CPPs related to smoothing; ALLOW_SMOOTH_CORREL2D/3D, |
799 |
|
ALLOW_CTRL_SMOOTH, ALLOW_SMOOTH_CTRL2D, ALLOW_SMOOTH_CTRL3D. |
800 |
|
- ctrl.h : document run time params doInitXX, doMainPack, doMainUnpack, doPackDiag, |
801 |
|
doSinglePrecTapelev (audodiff param!), ctrlSmoothCorrel2D (new) and |
802 |
|
ctrlSmoothCorrel3D (new). |
803 |
|
The added ctrlSmoothCorrel2D/3D replace the old ALLOW_SMOOTH_CORREL2D/3D CPP. |
804 |
|
- ctrl_readparms.F : initialise ctrlSmoothCorrel2D/3D and read from namelist. |
805 |
|
- ctrl_init.F ctrl_pack.F ctrl_unpack.F : switch off ustress/vstress |
806 |
|
controls when useAtmWind, and vice versa. |
807 |
|
- ctrl_map_ini_ecco.F : UVEL0, VVEL0, edtaux, edtauy cannot be smoothed as tracers. |
808 |
|
- ctrl_get_gen.F : replace #ifdef ALLOW_SMOOTH_CORREL2D with |
809 |
|
#ifdef ALLOW_SMOOTH, IF ctrlSmoothCorrel2D, IF useSMOOTH. |
810 |
|
- ctrl_map_ini_gen.F : replace #ifdef ALLOW_SMOOTH_CORREL3D with |
811 |
|
#ifdef ALLOW_SMOOTH, IF ctrlSmoothCorrel3D, IF useSMOOTH. |
812 |
|
- ctrl_set_pack_xy[z].F, ctrl_set_unpack_xy[z].F: |
813 |
|
replace ALLOW_SMOOTH_CORREL2D/3D brackets with ctrlSmoothCorrel2D/3D. |
814 |
|
o pkg/smooth: |
815 |
|
- remove un-necessary includes. |
816 |
|
- remove ALLOW_SMOOTH*D and ALLOW_SMOOTH_CORREL*D brakets. |
817 |
|
Those CPP options were never defined, and not necessary. |
818 |
|
o model/src: |
819 |
|
- fix CPP brackets in ini_mixing.F (GM_background_K belongs to gmredi). |
820 |
|
- standard treatment of useSMOOTH. |
821 |
|
o pkg/autodiff: |
822 |
|
- add LOGICAL useGGL90inAdMode, useGGL90inFwdMode, useSALT_PLUMEinAdMode, |
823 |
|
useSALT_PLUMEInFwdMode allowing to switch off ggl90 and salt_plume adjoint. |
824 |
|
o pkg/exch2: |
825 |
|
- add "if usingMPI" where it was missing (in exch2_rx?_cube*.template) |
826 |
|
+ start to remove ALWAYS_USE_MPI in source code that TAF does not see. |
827 |
|
- make new S/R W2_MAP_PROCS out of w2_eeboot.F to setup exch2 CommonFlag |
828 |
|
and tiles to process mapping. |
829 |
|
- re-arrange 3 header files (W2_EXCH2_PARAMS.h, _BUFFER.h & _TOPOLOGY.h) |
830 |
|
moving /EXCH2_FILLVAL_RX/ & /W2_EXCH2_COMMFLAG/ to W2_EXCH2_TOPOLOGY.h; |
831 |
|
rename "exch2_tProc" to "W2_tileProc" and move seting of e2FillValue_RX |
832 |
|
from w2_eeboot.F to w2_readparms.F. |
833 |
|
o eesupp/src: |
834 |
|
- set exchNeedsMemsync & exchUsesBarrier according to "usingMPI" (instead of |
835 |
|
ALWAYS_USE_MPI) + moved from ini_communication_patterns.F to eeset_parms.F; |
836 |
|
also move setting of exchCollectStatistics from exch_init.F to eeset_parms.F |
837 |
|
- in eedie.F and all_proc_die.F, always call MPI_FINALIZE when ALLOW_USE_MPI |
838 |
|
is defined (remove condition on usingMPI) to match cases where MPI_INIT |
839 |
|
has been called. |
840 |
|
- fix bug I put in previous modif of exch_sm_3d_rx.template (not much used); |
841 |
|
- change default (non-MPI) value of myPid (from 1 to 0) to match MPI settings |
842 |
|
(so that on 1 proc, get same myPid independently of usingMPI) |
843 |
|
- add a stop if multi-procs but usingMPI=F ; stop also if usingMPI=T and |
844 |
|
useCubedSphereExchange with EXCH-1 (safer). |
845 |
|
- add "if usingMPI" where it was missing (+ start to remove ALWAYS_USE_MPI). |
846 |
|
o pkg/ggl90: |
847 |
|
- fix bug in filling corner mask array "mskCor" (FILL_CS_CORNER_TR_RL call) |
848 |
|
used in ALLOW_GGL90_SMOOTH code. |
849 |
|
o pkg/flt: |
850 |
|
- fix typo in FLT_WITHOUT_Y_PERIODICITY (the effect was to ignore stopping |
851 |
|
floats at the Southern end of the domain). |
852 |
|
o eesupp/inc: |
853 |
|
- add a list of CPP-options which can be set by Makefile (DEF_IN_MAKEFILE.h); |
854 |
|
but not used (and not to be used) anywhere, just for documentation. |
855 |
|
o pkg/autodiff, exf, ptracers & seaice (AD & TL output): |
856 |
|
- comment out the very nasty "writeBinaryPrec = writeStatePrec" line, since: |
857 |
|
a) can damage previously written records in any other multi-record files. |
858 |
|
b) if needed, can easily do it cleanly, by calling S/R WRITE_REC_3D_RL/S. |
859 |
|
o tools/genmake2: |
860 |
|
- define variable MAKE within Makefile and use it in place of 'make'; |
861 |
|
- update AD_CONFIG.h (if needed) before building any of the executable |
862 |
|
(forward, adjoint or tangent-lin); this involves a 2nd invocation of make; |
863 |
|
and add the usual #ifndef/#define AD_CONFIG_H in AD_CONFIG.h; |
864 |
|
- always print usual warning comment 'this file is automatically generated' |
865 |
|
from script convert_cpp_cmd2defines (+ remove this warning from genmake2). |
866 |
|
o pkg/cheapaml: |
867 |
|
- updated to correspond to the code used in accepted paper (Nico Wienders). |
868 |
|
o pkg/exf: |
869 |
|
added run time switch useAtmWind to replace ALLOW_ATM_WIND cpp switch. |
870 |
|
ALLOW_ATM_WIND now just sets the useAtmWind default (see exf_readparms.F) |
871 |
|
and force defines ALLOW_BULKFORMULAE (EXF_OPTIONS.h). |
872 |
|
o pkg/exf, autodiff, ctrl, ecco and seaice: |
873 |
|
remove ALLOW_ATM_WIND brackets, or replace them with useAtmWind ones. |
874 |
|
o pkg/ctrl, ecco: |
875 |
|
allow to compile both ALLOW_U/VSTRESS_CONTROL and ALLOW_U/VWIND_CONTROL. |
876 |
|
Depending on useAtmWind, one is inactive, and the other is active (see |
877 |
|
exf_getffields.F/exf_getsurfacefluxes.F). |
878 |
|
o tools/genmake2: |
879 |
|
- improve error msg when failing in 2nd test of check_for_broken_Ff |
880 |
|
- fix option '-makefile' short-name (-mf according to genmake2 -help) |
881 |
|
- source local config file "genmake_local" just after processing the genmake2 |
882 |
|
command arguments (previously done before processing arg). |
883 |
|
o pkg/grdchk: |
884 |
|
- add a call to TURNOFF_MODEL_IO for Tangent-Linear run (in this case, call |
885 |
|
to this routine from cost_final has been dropped in g_cost_final) |
886 |
|
- improve printed information (more explicit msg, no longer using "print *," |
887 |
|
fix fcpertminus printed value). |
888 |
|
o model/src: |
889 |
|
- move call to COST_INIT_VARIA out of packages_init_variables.F directly |
890 |
|
into initialise_varia.F (just after calling PACKAGES_INIT_VARIABLES): |
891 |
|
this prevents getting cost-funct reset in adinitialise_varia recomputations. |
892 |
|
o pkg/dic: |
893 |
|
- move initialisation of "freefe" array from from dic_biotic_forcing.F to |
894 |
|
fe_chem.F: this prevents TAF from dropping this initialisation in TLM code. |
895 |
|
o pkg/grdchk: |
896 |
|
- grdchk_main.F : added CALL GLOBAL_SUM_INT( ierr , myThid ) |
897 |
|
- grdchk_getadxx.F etc. : omit I/O if ierr.EQ.0 |
898 |
|
o pkg/autodiff/ctrl/grdchk : |
899 |
|
- attempt to sort out what works and what does not, |
900 |
|
with regard to I/O, and to warn/stop accordingly. |
901 |
|
o pkg/grdchk: |
902 |
|
- attempt to fix grdchk in the case of useSingleCpuIO. |
903 |
|
- "if ( myProcId .EQ. grdchkwhichproc .AND. ierr .EQ. 0 )" |
904 |
|
statements were moved from grdchk_main.F and into |
905 |
|
grdchk_getadxx.F grdchk_getxx.F grdchk_setxx.F. |
906 |
|
- a global sum is applied to record numbers icvrec/layer |
907 |
|
out of grdchk_loc so that they be passed to I/O routines. |
908 |
|
o pkg/smooth: |
909 |
|
- fix recomputation that appeared with nlfs : use smooth_recip_hFacC, |
910 |
|
smooth_hFacW, smooth_hFacS (copied at init_fixed) in 3d case. |
911 |
|
o verification/testreport: |
912 |
|
- add option '-tlm' for Tangent-Linear test (-adm,-oad,-tlm are all exclusive); |
913 |
|
- can also use compressed (gzip) reference output file; |
914 |
|
- change format (in pkg/grdchk) of TLM output (+ add forward gradient) |
915 |
|
to be easier to collect by testreport. |
916 |
|
- update existing TLM output (half out-of-date by more than 3 yrs). |
917 |
|
- report NETCDF & LAPACK settings (from genmake2) in output dir. |
918 |
|
- report run-time in each individual summary (previously only for AD test); |
919 |
|
for TLM test, add also TAF version. |
920 |
|
- add daily TLM test on (old) aces cluster + weekly test on baudelaire. |
921 |
|
|
922 |
|
checkpoint63r (2012/08/15) |
923 |
|
o tools/genmake2: |
924 |
|
- fix Makefile for target ftlall (+ update files to clean after make ftlall) |
925 |
|
o pkg/ecco/ecco_cost_final.F : |
926 |
|
- fix fc print statements (to stdout and costfunction0000) so |
927 |
|
that the printed value is always after the global sum. |
928 |
|
o pkg/seaice/seaice_dynsolver.F : |
929 |
|
- fix ice strength assymptote at SEAICE_area_max<1 |
930 |
|
(no change for the standard case of SEAICE_area_max=1) |
931 |
|
o some cleaning: |
932 |
|
- pkg source files: ensure that all *.F files from each pkg included the |
933 |
|
corresponding ${PKG}_OPTIONS.h file (except stand-alone src file which |
934 |
|
only includes CPP_EEOPTIONS.h); fix S/R CTRL_SMOOTH ; update AD experiment |
935 |
|
code_ad/*.F src files; add new option-file in pkg/admtlm + corresponding |
936 |
|
includes; |
937 |
|
- model/src: add PACKAGES_CONFIG.h wherever ALLOW_AUTODIFF[_TAMC] is used. |
938 |
|
- ALLOW_DIFFKR_CONTROL: add a stop in S/R CTRL_CHECK in case ALLOW_3D_DIFFKR |
939 |
|
is undef; also define /DYNVARS_DIFFKR/ common block in DYNVARS.h when |
940 |
|
ALLOW_DIFFKR_CONTROL is defined, to allow to compile and reach this stop. |
941 |
|
- update option-file CPP_OPTIONS.h of all AD experiments: |
942 |
|
* no longer include PACKAGES_CONFIG.h ; |
943 |
|
* includes ECCO_CPPOPTIONS.h if PACKAGES_CONFIG.h has been included ; |
944 |
|
* def/undef ALLOW_3D_DIFFKR independently of ALLOW_DIFFKR_CONTROL (before |
945 |
|
including ECCO_CPPOPTIONS.h). |
946 |
|
o pkg/cost, pkg/ctrl, pkg/ecco option-file: |
947 |
|
- clean-up and split content of old pkg/ecco/ECCO_CPPOPTIONS.h file into |
948 |
|
separated pkg option-file (done according to old doc from ECCO_CPPOPTIONS.h, |
949 |
|
not necessary accurate). |
950 |
|
- add a template for option-file ECCO_CPPOPTIONS.h, mostly empty, in |
951 |
|
pkg/autodiff, i.e., the 1rst pkg to compile for adjoint built, with lines to |
952 |
|
deliberately break compilation (a remainder that it needs to be customized) |
953 |
|
- in pkg/ecco, includes ECCO_OPTIONS.h instead of COST_OPTIONS.h |
954 |
|
- rename COST_CPPOPTIONS.h to COST_OPTIONS.h |
955 |
|
- rename CTRL_CPPOPTIONS.h to CTRL_OPTIONS.h |
956 |
|
o tools/genamke2: |
957 |
|
- check for lapack. |
958 |
|
o pkg/cost and pkg/ecco : attempt to sort out some of the limiting intricacies. |
959 |
|
- pkg/cost.cost_final.F : allow for use of pkg/ecco and pkg/cost cost functions |
960 |
|
jointly. The exclusive ifdefs were removed, to add costs terms (when defined) |
961 |
|
from both packages. |
962 |
|
- the fc global sum in pkg/ecco/ecco_cost_final.F was removed accordingly. |
963 |
|
- for objf_atl we use either the pkg/ecco or the pkg/cost term depending on CPPs. |
964 |
|
- pkg/ecco and model/src : add CPP brackets around pkg/cost and pkg/ctrl includes |
965 |
|
of "CTRL_SIZE.h" "ctrl.h" "ctrl_dummy.h" "optim.h" / "cost.h" accordingly. |
966 |
|
o pkg/cost : add comments to explain special and/or untested setups. |
967 |
|
o pkg/exf: |
968 |
|
- use EXF_OPTIONS.h to set pkg/exf options except if done in ECCO_CPPOPTIONS.h |
969 |
|
(previously, ALLOW_AUTODIFF_TAMC was controling this switch). |
970 |
|
o verification/*/code_ad: |
971 |
|
mimimal cleaning of AD experiments ECCO_CPPOPTIONS.h option-file: |
972 |
|
- reccord when this file is included (define ECCO_CPPOPTIONS_H) |
973 |
|
- remove the most obvious obsolete features (e.g., #define ALLOW_COST not |
974 |
|
allowed since Oct 2003 in any option-file except in PACKAGES_CONFIG.h) |
975 |
|
o pkg/seaice : |
976 |
|
- added possibility to change ice strength/PRESS0 relationship to |
977 |
|
HEFF, according to the following run time parameters |
978 |
|
SEAICEpresPow0 :: HEFF exponent for ice strength below SEAICEpresH0 (integer, >0) |
979 |
|
SEAICEpresPow1 :: HEFF exponent for ice strength above SEAICEpresH0 (integer, >0) |
980 |
|
SEAICEpresH0 :: HEFF threshold for ice strength (m) |
981 |
|
o pkg/ggl90 : |
982 |
|
- added run time flag mxlSurfFlag to include the code that ensure |
983 |
|
mixing between first and second level (previously included as a comment) |
984 |
|
o verification/1D_ocean_ice_column/input_ad/data.autodiff : |
985 |
|
- add test of newly added dumpAdByRec=T option where |
986 |
|
we write all records to one file per variable. |
987 |
|
o verification/global_ocean.cs32x15/code_ad/CPP_OPTIONS.h : |
988 |
|
- switch to #define ALLOW_BALANCE_RELAX and ALLOW_BALANCE_FLUXES |
989 |
|
to check that this code is ok with taf and compiles in adjoint. |
990 |
|
o pkg/autodiff : |
991 |
|
- added run time param dumpAdByRec : ad dump format switch. |
992 |
|
If true then write all records to one file per variable. |
993 |
|
Else write one file per record (remains the default). |
994 |
|
- revise seaice_ad_dump.F and exf_adjoint_snapshots_ad.F accordingly. |
995 |
|
o pkg/seaice: |
996 |
|
- Added SEAICEuseTILT run time switch : if set to |
997 |
|
false then omit the tilt term in seaice dynamics. |
998 |
|
- Fix free drift calculation. |
999 |
|
o pkg/shelfice: |
1000 |
|
When initializing SHELFICEDragQuadratic, set default to be |
1001 |
|
consistent with shiCdrag in case SHELFICEuseGammaFrict is used, |
1002 |
|
but retain option to set it independently |
1003 |
|
(inconsistenty spotted by Veronique Dansereau) |
1004 |
|
o eesupp/inc: |
1005 |
|
- in EEPARAMS.h, add real-type constant for some frequently used simple number |
1006 |
|
(0,1,2,1/2), with name explicitly referring to RS/RL type. |
1007 |
|
o model/src: |
1008 |
|
- move balancing of relaxation terms to new S/R balance_relax.F. |
1009 |
|
o pkg/autodiff: |
1010 |
|
re-write active I/O high-level (control) S/R: |
1011 |
|
- rename S/R ACTIVE_READ/WRITE_RL to ACTIVE_READ/WRITE_3D_RL |
1012 |
|
- add 1 more argument (useCurrentDir) to replace the "_LOC" 2nd set of S/R. |
1013 |
|
- use standard pkg/mdsio I/O routines (MDS_READ/WRITE_SEC_XZ/YZ and |
1014 |
|
MDS_READ/WRITE_FIELD); change loops to multi-threads. |
1015 |
|
- update and merge active_file_control_slice.flow into active_file_control.flow |
1016 |
|
- update the calls in lower level S/R (active_file.F, active_file_g.F and |
1017 |
|
active_file_ad.F) keeping the argument list and function unchanged. |
1018 |
|
- also update lower-level "_LOC" version (call same S/R with "useCurrentDir |
1019 |
|
=.TRUE.") and remove high-level (control) _loc version (not called anymore). |
1020 |
|
- new low-level active I/O routines, one for each type (RL/RS), for active var |
1021 |
|
of various (XY,XZ,YZ) shape and level number (arguments: arrShape, myNr); |
1022 |
|
fix ctrl_init_wet.F & ecco_cost_weights.F by calling the new S/R with the |
1023 |
|
right type. |
1024 |
|
o autodiff and RS=real*4: |
1025 |
|
- call the right type (_RS instead of _RL) of S/R in few output S/R (pkg/exf |
1026 |
|
ad-monitor and snapshots); disable arrType='RS' in mdsio_gl*.F ; |
1027 |
|
- change argument type of 3-D mask argument to _RS to match type in the call |
1028 |
|
(in seaice_cost*.F, ctrl_*_gen.F and *ctrl_bound.F); to be continued. |
1029 |
|
o pkg/thsice: |
1030 |
|
- re-anable balanceEmPmR when useSEAICE=T with useThSIce=T. |
1031 |
|
- option to correct ocean fresh-water flux for imbalance of Atmos+Land |
1032 |
|
fresh-water flux: uniform correction or proportional to local precip. |
1033 |
|
o pkg/ctrl: |
1034 |
|
- new header file CTRL_SIZE.h for parameters maxCtrlArr2D, maxCtrlArr3D |
1035 |
|
- redefine CPP option ALLOW_BOTTOMDRAG_CONTROL to |
1036 |
|
ALLOW_BOTTOMDRAG_CONTROL_NONGENERIC |
1037 |
|
- verification/hs94.1x64x5/ tests ALLOW_GENARR{2D,3D}_CONTROL |
1038 |
|
|
1039 |
|
checkpoint63q (2012/07/30) |
1040 |
|
o pkg/autodiff: |
1041 |
|
note about monitor and snap-shot of ad-variables: |
1042 |
|
a) need to apply ADEXCH before monitor or output of ad-vars to include |
1043 |
|
overlap contributions (was done for adjDump but missing for monitor). |
1044 |
|
b) since ADEXCH implies adding overlap values to interior array, machine |
1045 |
|
truncation error is expected when adding an ADEXCH call in the middle of |
1046 |
|
the time-stepping (although mathematically identical). |
1047 |
|
modifs: |
1048 |
|
- fix some incorrect type (RL/RS, UV/scalar) in ADEXCH calls and ad-vars |
1049 |
|
declaration (adEddyPsiX,adEddyPsiY in adcommon.h). |
1050 |
|
- add new run-time params (dumpAdVarExch & mon_AdVarExch) to select how to |
1051 |
|
apply ADEXCH before monitor or snap-shot of ad-variables: |
1052 |
|
=0 : no ADEXCH ; =1 : do ADEXCH ; =2 : apply ADEXCH on a local copy. |
1053 |
|
- implement new method (copy+adexch) for snap-shot and monitor of main model |
1054 |
|
ad-vars (initially not used by default -> output unchanged). |
1055 |
|
- change default (set to 2) to use new method and update few output_adm.txt |
1056 |
|
with accurate ad-monitor (global_ocean.90x40x15, tutorial_global_oce_biogeo |
1057 |
|
and both tutorial_tracer_adjsens tests). |
1058 |
|
- switch 2 global_ocean.cs32x15 AD-tests to AB-2 (seaice_dynmix & thsice) |
1059 |
|
and turn off momDissip_In_AB in the 2 other (needed for stable AB-3). |
1060 |
|
o pkg/ctrl: |
1061 |
|
enable the use of a variable number (maxCtrlArr2D, maxCtrlArr3D) of |
1062 |
|
generic control variables via |
1063 |
|
#define ALLOW_GENARR2D_CONTROL and/or #define ALLOW_GENARR3D_CONTROL |
1064 |
|
Only required customization should be S/R ctrl_map_ini_genarr.F |
1065 |
|
(routine in repository contains example) |
1066 |
|
o pkg/exf: |
1067 |
|
- fix and refine checking of surface-relaxation setting when using EXF |
1068 |
|
o verification (adjoint exp): |
1069 |
|
- reduce length of simulation by half for experiment global_ocean.cs32x15 |
1070 |
|
(std, seaice & seaice_dynmix) and exp tutorial_dic_adjoffline; update output. |
1071 |
|
o pkg/mom_common (mom_u/v_bottomdrag), pkg/shelfice (shelfice_u/v_drag) |
1072 |
|
- replace if statements KE.ne.0 with KE.gt.0 to avoid sqrt of negative numbers |
1073 |
|
of KE that can occur with aggressive optimization |
1074 |
|
+ put quadratic bottom drag calculation in separated loops (only done if |
1075 |
|
using bottomDragQuadratic) |
1076 |
|
o model/src: CG2D_NSA |
1077 |
|
- clean-up: stop if cg2dNormaliseRHS=T and AUTODIFF |
1078 |
|
and replace GLOBAL_SUM calls with GLOBAL_SUM_TILE. |
1079 |
|
- in test-exp that uses CG2D_NSA (bottom_ctrl & tutorial_tracer_adjsens), |
1080 |
|
change cg2d residual target to be expressed in Wunits (=> do not normalise |
1081 |
|
RHS ; this fix global_max Pb with TAF); update output. |
1082 |
|
o verification/tutorial_tracer_adjsens: |
1083 |
|
improve parameter consistency (and get rid of warnings): |
1084 |
|
- use deltaTFreeSurf=deltaTtracer (better with NonLin FreeSurf); |
1085 |
|
- switch Temp Adv Scheme from 81 to 80 (no limiter since theta < 0 is physical) |
1086 |
|
- use staggerTimeStep (for stability) in som81; use default rotation period. |
1087 |
|
o pkg/exch2: |
1088 |
|
- with empty facet: fix compact-format (W2_mapIO=1) definition (was previously |
1089 |
|
reset to 0 = 1 long line in X) |
1090 |
|
o pkg/mdsio: |
1091 |
|
- fix reading of dimensions from meta file for large-size domain |
1092 |
|
o model/src: |
1093 |
|
- fix saltIsActiveTr setting for IdealGas eosType (eosType is 6 character long); |
1094 |
|
- to refine CS-grid check, add logical flag "hasWetCSCorners": true if using |
1095 |
|
Cubed-Sphere Exch with CS-corners inside the domain; |
1096 |
|
make new S/R INI_GLOBAL_DOMAIN from code in ini_linear_phisurf.F to calculate |
1097 |
|
globalArea and to set hasWetCSCorners. |
1098 |
|
- add warning if usingCurvilinearGrid and momAdvection in flux-form (missing |
1099 |
|
metric terms); stop if hasWetCSCorners=T and momAdvection in flux-form. |
1100 |
|
- re-activate the stop if useCDscheme and hasWetCSCorners=T (previously if |
1101 |
|
useCDscheme and useCubedSphereExchange). |
1102 |
|
o pkg/seaice/seaice_growth.F : |
1103 |
|
- compute the SEAICE_DISABLE_HEATCONSFIX term accordingly |
1104 |
|
for the (.NOT.useRealFreshWaterFlux).OR.(nonlinFreeSurf.EQ.0) |
1105 |
|
when the previous code was not correct. |
1106 |
|
- in all cases diagnoze the boundary condition mismatch to SIaaflux |
1107 |
|
- in the case of useRealFreshWaterFlux.AND.(nonlinFreeSurf.GT.0) add |
1108 |
|
that term to QNET (essentially to set the melt/freeze water to 0degC). |
1109 |
|
when SEAICEheatConsFix is true, so that the ocean+ice budget heat is closed. |
1110 |
|
o verification/global_ocean.cs32x15/input.seaice : |
1111 |
|
- add SEAICEheatConsFix in data.seaice, ensuring closed ocean+ice heat budget. |
1112 |
|
- add diagnostics (commented out) for budget test using my matlab codes (gcmfaces). |
1113 |
|
- update results (output.seaice.txt) accordingly. |
1114 |
|
o verification/lab_sea/input/data.seaice : |
1115 |
|
- remove SEAICEheatConsFix, which is now be tested |
1116 |
|
in global_ocean.cs32x15. The presently coded fix |
1117 |
|
is only consistent with real fresh water + nlfs. |
1118 |
|
- update results (output.txt) accordingly. |
1119 |
|
o pkg/salt_plume: added diagnotic for salt tendency (oceSPtnd). |
1120 |
|
o AD_CONFIG.h file: |
1121 |
|
- in genmake2: remove "#undef ALLOW_ECCO_OPTIMIZATION" from AD_CONFIG.h; |
1122 |
|
- remove #include "AD_CONFIG.h" from all included OPTIONS files and |
1123 |
|
add it explicitly in each fortran src file where it is needed. |
1124 |
|
motivation: header file AD_CONFIG.h is generated/modified after "make depend" |
1125 |
|
thus introducing potentially wrong dependency; therefore, better to include |
1126 |
|
it only where it's really needed, and after any other included OPTIONS file |
1127 |
|
(less tempting to bring conditional includes according to ALLOW_ADJOINT_RUN |
1128 |
|
or ALLOW_TANGENTLINEAR_RUN). |
1129 |
|
|
1130 |
|
checkpoint63p (2012/07/06) |
1131 |
|
o pkg/autodiff: |
1132 |
|
- rename S/R INI_AUTODIFF to AUTODIFF_INIT_VARIA ; |
1133 |
|
- create new header file "AUTODIFF_PARAMS.h" for pkg/autodiff parameters |
1134 |
|
which are now read from new parameter file "data.autodiff" (inAdExact |
1135 |
|
previously in "data", use{KPP/GMRedi/SEAICE}inAdMode previously in data.pkg) |
1136 |
|
- add file "data.autodiff" in all verification/*/input_ad/ directories. |
1137 |
|
- add run-time parameter to turn On/Off SEAICEuseFREEDRIFT in adjoint/forward |
1138 |
|
mode (used in global_ocean.cs32x15.seaice_dynmix test exp.) |
1139 |
|
o verification/tutorial_tracer_adjsens/ |
1140 |
|
- add extra sub-verification which uses "SOM" advection scheme |
1141 |
|
(2nd Order-Moment Advection Scheme, Prather Limiter) with |
1142 |
|
#define GAD_ALLOW_TS_SOM_ADV in GAD_OPTIONS.h |
1143 |
|
and in data: |
1144 |
|
multiDimAdvection=.TRUE., |
1145 |
|
tempAdvScheme=81, |
1146 |
|
saltAdvScheme=81, |
1147 |
|
o model/src: |
1148 |
|
- introduce ALLOW_BALANCE_RELAX which allow the removal |
1149 |
|
of the global mean of relaxation terms by setting |
1150 |
|
balanceThetaClimRelax and balanceSaltClimRelax |
1151 |
|
- disable balanceEmPmR and balanceQnet in the case when useSeaice. |
1152 |
|
This case is now treated appropriately in seaice_growth.F |
1153 |
|
o pkg/seaice: |
1154 |
|
- do balanceEmPmR and balanceQnet based on the net fluxes |
1155 |
|
(SItflux) that enter the ocean+ice system rather than QNET |
1156 |
|
and EMPMR. Works best in real fresh water. |
1157 |
|
- SIatmFW, SIatmQnet, and SItflux computations had to be moved |
1158 |
|
out of the diagnotics bloc, and stored in global arrays. |
1159 |
|
|
1160 |
|
checkpoint63o (2012/06/29) |
1161 |
|
o vertical mixing schemes: |
1162 |
|
- remove unused S/R CALC_BUOYANCY (left from branch-atmos merging) |
1163 |
|
- replace computation of density (in Function STATE1, opps_calc.F) by a call |
1164 |
|
to S/R FIND_RHO_SCALAR |
1165 |
|
- pass sigmaR to S/R PP81_CALC, MY82_CALC (but not yet used) and to GGL90_CALC |
1166 |
|
and use it for N^2 calculation in ggl90_calc.F (save 2 density computations); |
1167 |
|
affects output (vermix.ggl90) at truncation level. |
1168 |
|
o testreport: |
1169 |
|
- change adjustment of SIZE.h for mpi+mth testing: preserve enough tiles |
1170 |
|
(nSx,nSy) for the number of threads (from eedata.mth) |
1171 |
|
o model/src: |
1172 |
|
- remove 2nd set of calls at the top of initialise_varia.F (Adjoint part) |
1173 |
|
related to Non_Lin Free-Surf or Bottom-Control (but not longer necessary). |
1174 |
|
o verification/tutorial_tracer_adjsens/ |
1175 |
|
- compile with ALLOW_CG2D_NSA |
1176 |
|
- run with nonlinFreeSurf=3 |
1177 |
|
- update reference output_adm.txt |
1178 |
|
o tools/genmake2: |
1179 |
|
- add "-DHAVE_NETCDF" to the DEFINES list when NetCDF is available ; |
1180 |
|
refine usePROFILES switching off (only when NetCDF is not available). |
1181 |
|
o verification (atmospheric set-up): |
1182 |
|
- change eosType='IDEALGAS' to eosType='IDEALG' to match variable declaration |
1183 |
|
o pkg/profiles : refine profiles and files handling. |
1184 |
|
o model/src and pkg/ecco : introduce run-time switch usePROFILES. |
1185 |
|
o model/src/the_main_loop.F, forward_step.F and pkg/exf/EXF_OPTIONS.h : |
1186 |
|
- changes to use model/src/the_main_loop.F rather than the ecco version |
1187 |
|
in ecco type adjoint runs. |
1188 |
|
o model/src: |
1189 |
|
- move computation of recip of grid distance & area from INI_MASKS_ETC to INI_GRID |
1190 |
|
- move setting of h0Fac[C,W,S] from INI_LINEAR_PHISURF to INI_MASKS_ETC |
1191 |
|
- update_masks_etc.F: rename SMOOTH*_R4,R8 function to the corresponding type (RS,RL) |
1192 |
|
o model/src: |
1193 |
|
- fix S/R UPDATE_CG2D for ALLOW_DEPTH_CONTROL case (was empty before); |
1194 |
|
update output of test experiment bottom_ctrl_5x5. |
1195 |
|
o pkg/generic_advdiff: |
1196 |
|
- implement vertical bi-harmonic diffusion (for now, only for T & S and |
1197 |
|
only explicitly). |
1198 |
|
o verification/bottom_ctrl_5x5/ |
1199 |
|
update reference output (results changed quite some time ago, |
1200 |
|
not sure when; but new reference results look ok in terms of grdchk) |
1201 |
|
o verification/1D_ocean_ice_column/ |
1202 |
|
For verification purposes, the exact adjoint rather than an approx. |
1203 |
|
should be used (e.g., to comare against F.D. or TLM). |
1204 |
|
removed autodiff_inadmode*_ad.F routines in code_ad/ |
1205 |
|
Update results/ accordingly. |
1206 |
|
o pkg/cal: |
1207 |
|
- change cal_getdate.F so that output date is function of input time only |
1208 |
|
(less ambiguous, not mixed up with input iteration number). |
1209 |
|
- fix calendarDumps for non-zero phase-lag (S/R CAL_TIME2DUMP). |
1210 |
|
o pkg/diagnostics: |
1211 |
|
- implement calendarDumps also for stats-diags |
1212 |
|
- implement calendarDumps also for snap-shot output (negative freq) |
1213 |
|
- for now, ignores calendarDumps if non-zero phase-lag. |
1214 |
|
|
1215 |
|
checkpoint63n (2012/06/04) |
1216 |
|
o model/src: |
1217 |
|
- recompute rSurfW & S to ensure consistent column thickness (needed for rStar) |
1218 |
|
between Sum_k(hFac*drF) and rSurf-rLow, for now only when using pkg/shelfice; |
1219 |
|
- use h0FacC, W & S to compute hFac_surfC, W & S in calc_surf_dr.F (more |
1220 |
|
similar to calc_r_star.F); update results of experiment internal_wave and |
1221 |
|
tutorial_global_oce_in_p (affected @ truncation level). |
1222 |
|
o pkg/shelfice: |
1223 |
|
- add parameterisation of advective-diffusive flux into the ice shelf |
1224 |
|
according to Holland and Jenkins (1999), eq.22-33, as suggested by Jan De Ryd |
1225 |
|
- simply eps3/3a computation |
1226 |
|
o eesupp: |
1227 |
|
- add new CPP option (DISCONNECTED_TILES) to disconnect tiles (no exchange |
1228 |
|
between tiles, just fill-in edges assuming locally periodic subdomain) and |
1229 |
|
add corresponding exchange subroutines (EXCH0); |
1230 |
|
- new CG-solver version (_EX0) for disconnected-tiles special case. |
1231 |
|
o model/src (CG-solvers): |
1232 |
|
- modify Single-Reduction version (CG2D_SR) in case cg2dMaxIters is reached |
1233 |
|
(similar final residual output and max-Iter number as with standard version); |
1234 |
|
- allows to store and use lowest-residual solution (standard & _SR versions); |
1235 |
|
- cleaning up (remove old, commented out code, LETS_MAKE_JAM ...). |
1236 |
|
- by default, also compile CG2D_SR version (define ALLOW_SRCG in CPP_OPTIONS.h) |
1237 |
|
o eesup/src: |
1238 |
|
- global_vec_sum.F cleaning: add a BARRIER ; update comments ; remove ndef |
1239 |
|
ALWAYS_USE_MPI (no longer needed after fixing usingMPI settings - March 2012) |
1240 |
|
o pkg/salt_plume added to lab_sea/input_ad.noseaicedyn |
1241 |
|
|
1242 |
|
checkpoint63m (2012/04/27) |
1243 |
|
o pkg/shelfice: |
1244 |
|
- account for partical cells in surface level below ice-shelf for hydrostatic |
1245 |
|
pressure calculion (set uniformFreeSurfLev to F); update isomip experiments. |
1246 |
|
o ad test experiments: |
1247 |
|
- update and rename to "ad_optfile.local" local AD-optfile specific to a |
1248 |
|
particular adjoint verification experiment (in verification/*/code_ad/) |
1249 |
|
o pkg/seaice & pkg/exf: |
1250 |
|
- Part two of ECCO-CLIVAR code merges. |
1251 |
|
Completes merge of seaice area relax. code. |
1252 |
|
Requires unified CPP option EXF_ALLOW_SEAICE_RELAX |
1253 |
|
to be set in EXF_OPTIONS.h since this pkg controls its I/O |
1254 |
|
(and avoids second CPP option in SEAICE_OPTIONS.h) |
1255 |
|
- change default value of costIceStart & costIceEnd to a valid date. |
1256 |
|
- add snowPrecip to HSNOW in seaice_growth |
1257 |
|
o pkg/ptracers: |
1258 |
|
- move ptracers summary and setup check into separated S/R ; add a check for |
1259 |
|
valid PTRACERS_Iter0 value (error+stop or just warning). |
1260 |
|
o pkg/cal (+ pkg/ecco): |
1261 |
|
- avoid calling a S/R with 2 times the same arg (FWD: unless both are only used |
1262 |
|
as input; and for AD, unless both are not differentiable (e.g., k index)). |
1263 |
|
o model/src: |
1264 |
|
- define internal flag "uniformFreeSurfLev" (=T when free-surface level-index |
1265 |
|
is everywhere k=1) to speed-up some calculations (by pass kSurf reference); |
1266 |
|
temporary set to usingZCoords value (to be changed to F when using shelfice). |
1267 |
|
- hydrostatic pressure: implement partial cell near the surface also for |
1268 |
|
Z-coordinates (for the case where uniformFreeSurfLev=F); replace test on |
1269 |
|
usingZCoords with test on uniformFreeSurfLev where needed (in NonHyd code). |
1270 |
|
o pkg/ctrl/ctrl_init.F: |
1271 |
|
- add a formal parameter to s/r ctrl_init_rec to print |
1272 |
|
xx_$(ctrl_valiable)_file for easier debugging |
1273 |
|
- move call of cal_* routines into the if-block where they are really |
1274 |
|
needed so that xx_$(ctrl_variable)_period can be 0 or -12 without having |
1275 |
|
to specify a startdate |
1276 |
|
o pkg/seaice: |
1277 |
|
- update comments in SEAICE_OPTIONS.h (+ similar update of lab_sea/code and |
1278 |
|
global_ocean.cs32x15/code versions). |
1279 |
|
- turn on seaice Multi-category (in data.seaice, SEAICE_multDim=7) for |
1280 |
|
verification experiment global_ocean.cs32x15.seaice and update results. |
1281 |
|
o pkg/exf: |
1282 |
|
- new S/R EXF_GETFIELD_START to return starting-time of a forcing field |
1283 |
|
(according to useExfYearlyFields). |
1284 |
|
o pkg/cal: |
1285 |
|
- move calendar setting & summary (previously in cal_readparams.F) into new |
1286 |
|
S/R CAL_INIT_FIXED to be called later in the initialisation process, once |
1287 |
|
length of the simulation is set (after SET_PARMS call); This is an attempt |
1288 |
|
to fix Pb when, e.g.: pkg/longstep, modifies the length of the run. |
1289 |
|
- For safety: keep a record of pkg/cal parameter settings status |
1290 |
|
to allow to STOP if one pkg/cal S/R is called too early. |
1291 |
|
- add a stop in all basic pkg/cal subroutines if called before setting is done. |
1292 |
|
- modify cal_getdate.F: stop when nothing was returned; |
1293 |
|
if called with myIter=-1, simply retrun modelBaseDate (1,2 = startDate_1,_2); |
1294 |
|
this allows to remove "cal.h" from seaice_read_parms.F & init_mnc_vars.F. |
1295 |
|
|
1296 |
|
checkpoint63l (2012/04/04) |
1297 |
|
o pkg/bbl: |
1298 |
|
- fix call to FIND_RHO_2D in bbl_calc_rho.F (case multi-tiles per proc); |
1299 |
|
update global_with_exf output.yearly.txt file. |
1300 |
|
o pkg/cal: |
1301 |
|
- start to clean-up cal_set.F ; fix for the case where baseTime is non-zero. |
1302 |
|
- remove 2 unsused and very short (1 line only) functions ; |
1303 |
|
- remove unsused subroutines from AD-Diff list. |
1304 |
|
o model/src: |
1305 |
|
- start to implement clean wait to stop in initialization S/R (config_check.F, |
1306 |
|
packages_check.F, ini_parms.F and pkg/obcs/obcs_check.F + pkg/mypackage) |
1307 |
|
o folowing PRINT_MESSAGE changes: |
1308 |
|
- remove reminder multiple print to the same file (STDOUT) when multi-threads. |
1309 |
|
o pkg/bbl: |
1310 |
|
- modification so it can work with z* |
1311 |
|
- replace deltaT with dTtracerLev(k) for asynchronous time stepping |
1312 |
|
- global_with_exf/input.yearly verification; changes output.yearly.txt |
1313 |
|
o eesupp/src: |
1314 |
|
- PRINT_MESSAGE: use OpenMP critical instruction (similar to PRINT_ERROR); |
1315 |
|
writing to unit 0 (if unit=errorMessageUnit) extended to the case myThid=1 |
1316 |
|
- CHECK_THREADS: specific code if using OpenMP threading: improve checking of |
1317 |
|
# of threads across processors (e.g., different env OMP_NUM_THREADS setting) |
1318 |
|
- improve special preliminary call to EESET_PARMS (if eedata is read 2 times). |
1319 |
|
- when using MPI, always set usingMPI=T ; set default accordingly and stop |
1320 |
|
if not consistent. |
1321 |
|
- ALL_PROC_DIE: add a BARRIER after MPI_FINALIZE call ; skip this when thread |
1322 |
|
argument is zero (in case called within single-thread section). |
1323 |
|
o pkg/fizhi: |
1324 |
|
clean-up turbulence cold-start switch: decided in fizhi_init_vars.F, stored |
1325 |
|
in common bloc (fizhi_coms.h) and then passed as argument up to S/R TURBIO. |
1326 |
|
o pkg/exch2: |
1327 |
|
- add argument "updateCorners" to S/R exch2_get_uv_bounds (enable to |
1328 |
|
activate EXCH_IGNORE_CORNERS in vector EXCH S/R). |
1329 |
|
- switch 1rst EXCH call to IGNORE_CORNERS (instead of UPDATE_CORNERS) |
1330 |
|
but keep the 2nd with UPDATE_CORNERS: this prevents overwriting good data |
1331 |
|
with bad ones coming from a not-yet-updated halo. |
1332 |
|
This should fix the problem when sNx <> sNy and GCD(sNx,sNy) < 2*Olx. |
1333 |
|
o pkg/frazil: |
1334 |
|
move FrzForcT diag from frazil_diagnostics_state.F to frazil_calc_rhs.F |
1335 |
|
http://mitgcm.org/pipermail/mitgcm-devel/2012-March/005384.html |
1336 |
|
o model/src/config_check.F: add a check for OLx>sNx/OLy>sNy |
1337 |
|
o verification/lab_sea |
1338 |
|
* #undef SEAICE_EXCLUDE_FOR_EXACT_AD_TESTING |
1339 |
|
* #define ALLOW_SST_CONTROL & ALLOW_SST_CONTROL |
1340 |
|
* nTimeSteps 3 -> 4 |
1341 |
|
* changed reference output accordingly |
1342 |
|
o pkg/ctrl: |
1343 |
|
* fix ctrl_get_gen for xx_sst, xx_sss |
1344 |
|
o pkg/fizhi: |
1345 |
|
- fix 2 calls to S/R GRD2MSC (argument igrd) in update_earth_exports.F |
1346 |
|
update results of exp. fizhi-cs-32x32x40 (fail with only 6 digits for cg2d) |
1347 |
|
- by default, use new version of S/R GETPWHERE (#define TRY_NEW_GETPWHERE); |
1348 |
|
fix few out-of-bounds indices in referencing vars (initialise igrd to 1); |
1349 |
|
clean-up fizhi_turb.F (remove unused & uninitialised qdiaglsm array). |
1350 |
|
o pkg/gmredi: |
1351 |
|
- add diagnostic of Redi (main diagnonal) vertical diffusive flux of Temp |
1352 |
|
o pkg/fizhi: |
1353 |
|
- fix few initialisation and multi-tile Pb: aqualev & gridalt now pass the |
1354 |
|
(old)aces open64 tuv test. |
1355 |
|
o pkg/icefront: fix bug and reorder loop in icefront_init_varia.F |
1356 |
|
o pkg/mom_vecinv: |
1357 |
|
- fix 1 loop range in mom_vecinv.F to be like all the other loops which |
1358 |
|
set/update gu,gv/Diss (fix Pb of uninitialised fVerUkp in admom_vecinv |
1359 |
|
with non-lin free-surf). |
1360 |
|
o model/src: move k-loop outside of i/j-loops when (re-)computing R_low |
1361 |
|
in ini/update_masks_etc.F in order to avoid -O3 optimization problems with |
1362 |
|
some compilers (gfortran 4.6.0 on MacOS) |
1363 |
|
o momentum: |
1364 |
|
- separate fVer?(:,:,kUp) & fVer?(:,:,kDown) in argument list of MOM_FLUXFORM |
1365 |
|
& MOM_VECINV subroutines (to help TAF). This fixes Pb of uninitialised |
1366 |
|
fVer?(kUp) in admom_fluxform with non-lin free-surf or bottom control. |
1367 |
|
|
1368 |
|
checkpoint63k (2012/03/17) |
1369 |
|
o model/src: |
1370 |
|
- selectAddFluid (ALLOW_ADDFLUID): add missing term in horizontal momentum |
1371 |
|
flux-form (mom_fluxform.F) and vertical momentum (calc_gw.F) equations. |
1372 |
|
- SOLVE_DIAGONAL: switch default to use adjoinable & vectorized version |
1373 |
|
(#undef SOLVE_DIAGONAL_LOWMEMORY); update output of exp. front_relax.bvp. |
1374 |
|
o model/src: solve_*diagonal.F |
1375 |
|
- replace division with multiplication by inverse (similar to original version) |
1376 |
|
update output of AD exp. global_ocean.90x40x15. |
1377 |
|
- fix pkg/gmredi/gmredi_calc_psi_bvp.F & pkg/ggl90/ggl90_calc.F |
1378 |
|
to enable the use of the vectorized & differentiable solve_tridiagonal.F |
1379 |
|
- test exp. global_ocean.90x40x15/input_ad: switch to advection scheme 20 for |
1380 |
|
vertical advection (to get solve_tridiagonal tested in AD mode). |
1381 |
|
o pkg/seaice: ECCO-CLIVAR merge: |
1382 |
|
1. seaice AREA relaxation |
1383 |
|
* CPP option: SEAICE_ALLOW_AREA_RELAXATION |
1384 |
|
* runtime flag: SEAICE_tauAreaObsRelax |
1385 |
|
2. modified global mean cost imbalance code: CPP option |
1386 |
|
ALLOW_SSH_GLOBMEAN_COST_CONTRIBUTION |
1387 |
|
o another iteration on solve_*diagonal.F |
1388 |
|
Make choices independent of AUTODIFF |
1389 |
|
Default will be the adjoinable vectorized version. |
1390 |
|
Alternative choices are: |
1391 |
|
* non-adjoinable original version with low memory footprint: |
1392 |
|
#define SOLVE_DIAGONAL_LOWMEMORY |
1393 |
|
* still adjoinable but does not vectorize (k as inner-most loop): |
1394 |
|
#define SOLVE_DIAGONAL_KINNER (keeping SOLVE_DIAGONAL_LOWMEMORY undef) |
1395 |
|
o testreport |
1396 |
|
- add option to use a home made wrapper around "make" |
1397 |
|
- remove MITGCM_IEEE env. variable (no longer active) |
1398 |
|
o pkg/shelfice |
1399 |
|
- improve computation of friction velocity for velocity dependent |
1400 |
|
exchange coefficients: include velocities into SHELFICEBoundaryLayer |
1401 |
|
block to average velocities vertically |
1402 |
|
- add TAF store directives for SHI_ALLOW_GAMMAFRICT |
1403 |
|
o Modify diagonal solvers, now three versions (upon request): |
1404 |
|
#ifndef SOLVE_DIAGONAL_AUTODIFF |
1405 |
|
1. default version (dating back a while ago) |
1406 |
|
#else /* def SOLVE_DIAGONAL_AUTODIFF */ |
1407 |
|
# ifdef SOLVE_DIAGONAL_KINNER |
1408 |
|
2. adjoinable version with k-innermost loop (G. Forget) |
1409 |
|
# else |
1410 |
|
3. adjoinable vectorized version of 2. |
1411 |
|
# endif |
1412 |
|
#endif /* SOLVE_DIAGONAL_AUTODIFF */ |
1413 |
|
All flags are currently set within routines, but could/should be moved to CPP-options. |
1414 |
|
Array bounds for 1. are as before, for 2.,3. cover the entire domain |
1415 |
|
(could be changed for 1. too). |
1416 |
|
o verification/lab_sea (fwd): |
1417 |
|
- update the 4 fwd lab_sea test experiment: no longer SEAICE_GROWTH_LEGACY, |
1418 |
|
use 7 categories (except hb87), new solve4temp params (except salt_plume), |
1419 |
|
constant salinity (=4) or variable salinity (salt_plume) done through |
1420 |
|
SItracer. |
1421 |
|
o pkg/seaice: |
1422 |
|
- rename parameters: SIsalFrac to SEAICE_saltFrac & SIsal0 to SEAICE_salt0; |
1423 |
|
- remove old parameters ( SEAICE_freeze, SEAICEturbFluxFormula, SEAICE_gamma_t, |
1424 |
|
SEAICE_gamma_t_frz, SEAICE_availHeatTaper & SEAICE_availHeatFracFrz) |
1425 |
|
from SEAICE_PARMS.h ; still need to fix seaice_cost_sst.F (broken when |
1426 |
|
SEAICE_freeze got retired) but already better than previously with |
1427 |
|
SEAICE_freeze=123456.7 deg.C; |
1428 |
|
- move setting of facOpenGrow/Melt from SEAICE_INIT_FIXED to SEAICE_READPARMS |
1429 |
|
(safer multi-threaded setting); always set SEAICEuseEVP; |
1430 |
|
- setting of ocean-ice turb. flux coeff: moved from SEAICE_CHECK to |
1431 |
|
SEAICE_READPARMS & SEAICE_INIT_FIXED (this fixes wrong summary report); |
1432 |
|
stop if multiple specifications for the same coeff; make sure default |
1433 |
|
SEAICE_mcPheePiston is compatible with drF(1) & deltaT. |
1434 |
|
o pkg/obcs: |
1435 |
|
- allow to switch to upwind 1rst order advection scheme for the advective |
1436 |
|
flux computation at the open-boundary; disabled for adjoint built. |
1437 |
|
o pkg/ptracers: |
1438 |
|
- rename PTRACERS_RESTART.h -> PTRACERS_START.h |
1439 |
|
- rename ptracers_fields_blocking_exchanges.F -> ptracers_fields_blocking_exch.F |
1440 |
|
- add parameter to decide when to start a tracer; use internal flag to |
1441 |
|
know which tracer to step-forward; switch this internal flag at the top |
1442 |
|
of forward_step.F (new S/R PTRACERS_SWITCH_ONOFF); for now, not enabled |
1443 |
|
for adjoint built. |
1444 |
|
o pkg/seaice: |
1445 |
|
- add SEAICE_SIZE.h anywhere in the code where SEAICE.h is included ; |
1446 |
|
- move MULTDIM declaration and setting from SEAICE.h to SEAICE_SIZE.h ; |
1447 |
|
- keep experiment offline_exf_seaice truly single category (set MULTDIM=1). |
1448 |
|
o pkg/ecco: |
1449 |
|
- fix writing of output file DiagnosCost_ClimSalt/Theta |
1450 |
|
and DiagnosCost_DriftSalt/Theta (if multi-tiles per proc). |
1451 |
|
o pkg/seaice: |
1452 |
|
- add missing initialisation of COR_ICE array in dynsolver.F |
1453 |
|
- merging SEAICE_MULTICATEGORY define and undef cases. Now the same code is |
1454 |
|
compiled either way, and is tested in all exps (multidim was only tested |
1455 |
|
in lab_sea ad before). |
1456 |
|
- cosmetic change to prepare for future addition of ITD. no change to results. |
1457 |
|
no defaults change. |
1458 |
|
- added run time param SEAICE_multDim (7 for SEAICE_MULTICATEGORY, 1 otherwise). |
1459 |
|
- by lack of adequate verification experiments, I further used custom versions |
1460 |
|
of global_ocean.cs32x15 to test multicat or not, with pickup or not. All |
1461 |
|
should be correct. |
1462 |
|
- avoid recomputations in ad. |
1463 |
|
o array initialisation in adjoint mode: |
1464 |
|
1) pkg/mom_common/mom_calc_ke.F: |
1465 |
|
add full array initialisation of KE inside mom_calc_ke.F (ALLOW_AUTODIFF_TAMC): |
1466 |
|
The S/R which calls MOM_CALC_KE initialises KE but in some recomputation |
1467 |
|
part this initialisation is gone, resulting in Floating Point Exception |
1468 |
|
(caught by open64 compiler with debug option). |
1469 |
|
2) model/src/convective_weights.F |
1470 |
|
set output convectCount over the full array range (instead of doing |
1471 |
|
an update): this fix a similar issue when called within recomputation (adjoint) |
1472 |
|
which could by-pass the initialisation (normally done in the caller S/R). |
1473 |
|
o pkg/seaice: |
1474 |
|
- final version of turbulent flux params, as agreed at MIT ice meet: |
1475 |
|
SEAICE_mcPheePiston (default is ~ 0.000875) |
1476 |
|
SEAICE_mcPheeTaper (default is 0.) |
1477 |
|
SEAICE_frazilFrac (defualt is 1.) |
1478 |
|
SEAICE_mcPheeStepFunc (default is false) |
1479 |
|
- changes results at trunction error level |
1480 |
|
- ifdef SEAICE_EXTERNAL_FLUXES, disallow SEAICE_waterAlbedo |
1481 |
|
o added pkg/frazil: |
1482 |
|
- see frazil_description.tex for details |
1483 |
|
- verification experiment is global_with_exf/input.yearly; changes output.yearly.txt |
1484 |
|
o pkg/shelfice/shelfice_thermodynamics.F |
1485 |
|
- fix exponents for velocity dependent exchange coefficients: change |
1486 |
|
from 2/3(=0) to 0.66666666666666667 |
1487 |
|
- move computation of velocity dependent exchange coefficients into |
1488 |
|
separate loop, so that it applies to both thermodynamics |
1489 |
|
- move some divisions by constants out of loops |
1490 |
|
|
1491 |
|
checkpoint63j (2012/02/16) |
1492 |
|
o pkg/seaice: |
1493 |
|
- overhaul of seaice_summary.F after feb 2012 clean-up of seaice_growth.F etc. |
1494 |
|
- SItracer: added run time params, and allow coupling to ocn salinity. |
1495 |
|
o pkg/seaice: remove (almost) all divisions by constants within loops |
1496 |
|
in seaice_growth.F and seaice_solve4temp.F, this changes (only) the cg2d |
1497 |
|
results of global_ocean.cs32x15.seaice from 16 to 11 digits (but only |
1498 |
|
those, caused by 1/QI -> recip_QI) -> update output.seaice.txt, |
1499 |
|
output_adm.seaice_dynmix.txt and also lab_sea: output_adm.evp.txt |
1500 |
|
o pkg/seaice : |
1501 |
|
- simplify McPhee tapering, and allow to use it with SEAICEturbFluxFormula |
1502 |
|
= 1 or 2, using newly added run time parameter SEAICE_availHeatTaper. |
1503 |
|
- fix d_AREAbyATM, d_AREAbyOCN, d_AREAbyICE diags I broke in r1.148. |
1504 |
|
- add permanent SItflux diag that corresponds to TFLUX but includes |
1505 |
|
ice+snow. Hence SItflux-TFLUX should match the ice+snow heat budget. |
1506 |
|
- allow activation/testing of a fix for suspected missing term in |
1507 |
|
ocn-ice heat budget (to be confirmed). To test this, you want to |
1508 |
|
undef SEAICE_DISABLE_HEATCONSFIX, and then set the run time param |
1509 |
|
SEAICEheatConsFix to .TRUE. that also allows the 'SIaaflux' diagnostic. |
1510 |
|
- no change in results, fwd or ad. |
1511 |
|
o global_ocean.cs32x15/results: 3 changes following from the pkg/seaice commit below: |
1512 |
|
- switch to variable freezing point. |
1513 |
|
Results change : cg2d -> 1 digits; ad -> 3-6-6 digits. |
1514 |
|
- bug fix : the sublimation term that was missing is now activated. |
1515 |
|
Results change : cg2d -> 2 digits; ad -> 8-6-6 digits. |
1516 |
|
- bug fix : flooding sign term for SIsal0.NE.0. |
1517 |
|
Result change : cg2d -> 8 digits; ad -> 11-12-9 digits. |
1518 |
|
o pkg/seaice: |
1519 |
|
- unified freezing point treatment : the old SEAICE_VARIABLE_FREEZING_POINT |
1520 |
|
is now the default, and the old default constant freezing point is recovered |
1521 |
|
with SEAICE_tempFrz0 = -1.96, |
1522 |
|
SEAICE_dTempFrz_dS = 0., |
1523 |
|
- retire SEAICE_freeze (= the old way of specifycing the constant freezing point) |
1524 |
|
- remove ALLOW_SEAICE_FLOODING brackets; run time switch is already there. |
1525 |
|
- bug fix (thanks to M. Losch) : the sublimation term that was missing is now |
1526 |
|
activated. To reproduce old results with this bug define SEAICE_DISABLE_SUBLIM. |
1527 |
|
- bug fix (silly me) : flooding sign term (seaice_growth.F r 1.149line 1211) |
1528 |
|
was wrong for SIsal0.NE.0. Changes cs32x15 results (see above item for detail). |
1529 |
|
- bug fix (thanks to O. Jahn) : area loss for melting got messed up in |
1530 |
|
seaice_growth r149 for legacy branch (no results change). |
1531 |
|
- introduce SEAICE_CAP_SUBLIM : caps sublimation heat flux in solve4temp (code |
1532 |
|
from I. Fenty). |
1533 |
|
- results did not change except for global_ocean.cs32x15, mostly due to the |
1534 |
|
switch to variable freezing point (see above item for detail). |
1535 |
|
o pkg/thsice: |
1536 |
|
- fix and simplify interface to salt_plume pkg ; diagnose directly amount of |
1537 |
|
seawater freezing in thsice_calc_thickn (not used). |
1538 |
|
o pkg/seaice: turbulent flux term specification via run time params. |
1539 |
|
- replace CPP switches with run time switches to facilitate testing |
1540 |
|
- retired CPPs : MCPHEE_OCEAN_ICE_HEAT_FLUX, |
1541 |
|
GRADIENT_MIXED_LAYER_TURBULENCE_FACTOR |
1542 |
|
- added runtime parameter : SEAICEturbFluxFormula |
1543 |
|
- move Mcphee constants to SEAICE_PARAMS.h |
1544 |
|
- seaice_readparms.F : read turbulent flux term params (SEAICEturbFluxFormula; |
1545 |
|
SEAICE_availHeatFrac/Frz, or SEAICE_gamma_t/_frz if apply); |
1546 |
|
remove seaice_summary call (moved to seaice_init_fixed) |
1547 |
|
- seaice_init_fixed.F : set SEAICE_availHeatFrac/Frz depending on |
1548 |
|
SEAICEturbFluxFormula, and seaice_summary call (moved from seaice_readparms) |
1549 |
|
- seaice_summary.F : add missing report of read turbulent flux term set up |
1550 |
|
and SITRACER. |
1551 |
|
- seaice_check.F : check range; inform and stop if retired CPPs are used |
1552 |
|
(incl. SEAICE_AGE). |
1553 |
|
- seaice_growth.F : unified use of SEAICE_availHeatFrac/Frz, without |
1554 |
|
CPP switch, same computation as before for the different options. |
1555 |
|
- change results at the truncation level. |
1556 |
|
o pkg/seaice: |
1557 |
|
- remove un-used parameters LAD & MAX_TICE ; add new run-time parameters: |
1558 |
|
useMaykutSatVapPoly (default=F), postSolvTempIter (default=2) and |
1559 |
|
SEAICE_wetAlbTemp (default=-1e-3). Remove option SEAICE_SOLVE4TEMP_LEGACY. |
1560 |
|
- update verification/*/input*/data.seaice: |
1561 |
|
to reproduce previous results with former #defined SEAICE_SOLVE4TEMP_LEGACY |
1562 |
|
code, set useMaykutSatVapPoly=T & postSolvTempIter=0 ; |
1563 |
|
and to reproduce previous results with former non-SOLVE4TEMP_LEGACY code, |
1564 |
|
set SEAICE_wetAlbTemp=0 & SEAICE_snowThick=0. |
1565 |
|
o pkg/seaice/seaice_solve4temp.F (SOLVE4TEMP_LEGACY): |
1566 |
|
- remove LEGACY code for solving for tsurf (A1,A2,A3) but maintain the same |
1567 |
|
algorithm (same choice: useMaykutPolySatVap=T, postSolvTempIter=0); |
1568 |
|
difference in results only due to machine truncation. |
1569 |
|
- remove MAX_TICE (tsurf is always =< TMELT anyway); keep MIN_TICE if using |
1570 |
|
MaykutPolySatVap; keep MIN_LWDOWN. |
1571 |
|
- adapt SEAICE_MODIFY_GROWTH_ADJ code (untested) to non-legacy formulation. |
1572 |
|
- update output of verification exp. lab_sea (4 fwd: 11 cg2d digits except hb87, |
1573 |
|
+ 3 AD: 6 digits except evp) and offline_exf_seaice.seaice (12 digits). |
1574 |
|
o pkg/salt_plume: |
1575 |
|
- isolate saltPlumeFlux array exch into a specific S/R called from |
1576 |
|
do_oceanic_phys.F |
1577 |
|
- add interface to pkg/salt_plume (filling of saltPlumeFlux) in pkg/thsice. |
1578 |
|
o verification: |
1579 |
|
- move untested set-up to MITgcm_contrib/verification_other. |
1580 |
|
o pkg/seaice: |
1581 |
|
- retire old way of SEAICE_AGE. Now replaced with ALLOW_SITRACER. |
1582 |
|
o pkg/seaice: |
1583 |
|
- seaice_solve4temp.F (keeping results unchanged): |
1584 |
|
* add 2 future run-time params to select which saturation vapor pressure |
1585 |
|
formula is used and how post-iteration fluxes are set. |
1586 |
|
Temporary set these 2 params according to option SOLVE4TEMP_LEGACY; |
1587 |
|
* New piece of code (not used) to update surf. atmos. heat flux F_ia using |
1588 |
|
the linearized expression to stay consistent with tsurf finding. |
1589 |
|
- seaice_freedrift.F avoid floating exception in sqrt(y) since y=sqrt(x*x)-x |
1590 |
|
can be < 0. |
1591 |
|
o pkg/seaice/seaice_solve4temp.F (SOLVE4TEMP_LEGACY undef): |
1592 |
|
- remove from F_ia (and from it's derivative dFiDTs1) the contribution of |
1593 |
|
conductive heat flux F_c , and add it explicitly when updating tsurf as |
1594 |
|
solution of: Fc = Fia + d/dT(Fia - Fc) *delta.tsurf |
1595 |
|
so that now F_ia has a consistent meaning through the entire routine. |
1596 |
|
This causes differences at truncation level: update output of fwd exp. |
1597 |
|
global_ocean.cs32x15.seaice. |
1598 |
|
o pkg/seaice: |
1599 |
|
- lots of editing/cleaning in seaice_solve4temp.F + better documentation |
1600 |
|
of arrays, sign/direction of fluxes; no effect on results. |
1601 |
|
- replace hard coded 273.16 (=previous value of celsius2K) by celsius2K |
1602 |
|
in seaice_budget_ocean.F & seaice_solve4temp.F (SOLVE4TEMP_LEGACY part); |
1603 |
|
note: this should have been done before changing celsius2K default. |
1604 |
|
- to keep results unchanged, add back old value of celsius2K in verification |
1605 |
|
exp. input*/data : lab_sea (AD), offline_exf_seaice (fwd+AD) & seaice_obcs |
1606 |
|
- replace hard coded seawater freezing temp in seaice_solve4temp.F (part |
1607 |
|
SOLVE4TEMP_LEGACY) of 271.20 (=previous value of celsius2K + default |
1608 |
|
value of SEAICE_freeze) by celsius2K+SEAICE_freeze so that seawater |
1609 |
|
freezing temp is consistent with value in seaice_growth.F ; this causes |
1610 |
|
differences at machine truncation level: update lab_sea AD output (3/4). |
1611 |
|
o pkg/seaice: |
1612 |
|
- mask (in exf_init_fixed.F) atemp,aqh,evap,precip,runoff,lwflx,areamask |
1613 |
|
and climsst/sss even when using seaice (to prevent calculation that might |
1614 |
|
use SST on land); does not affect any verification exp. |
1615 |
|
- apply mask to taux,tauy (in seaice_get_dynforcing.F); update output |
1616 |
|
of lab_sea.fd & lab_sea.hb87 and global_ocean.cs32x15.seaice_dynmix. |
1617 |
|
o pkg/seaice/seaice_growth.F: add mask to avoid non-zero ice thickness |
1618 |
|
over land (non-legacy code) |
1619 |
|
o vectorize salt_plume package: |
1620 |
|
- add extra code to salt_plume_frac and salt_plume_tendency_apply_s |
1621 |
|
- this code computes plumebk everywhere (also over land), thus requires |
1622 |
|
code to avoid divisions by zero and catch the case of kLev=Nr. |
1623 |
|
- efficiency of salt_plume_frac is still sub-optimal |
1624 |
|
o tools (genmake2): |
1625 |
|
- fix makefile NAME specification (option: -makefile NAME) by adding |
1626 |
|
"-f $MAKEFILE" in few places where it was missing including makedepend |
1627 |
|
command (contribution from Paul). |
1628 |
|
|
1629 |
|
checkpoint63i (2012/01/24) |
1630 |
|
o model/src: |
1631 |
|
- add factorized versions of some EOS code to find_rho.F, |
1632 |
|
define USE_FACTORIZED_EOS to turn it on (default for TARGET_NEC_SX) |
1633 |
|
o model/src: |
1634 |
|
- add celsius2K to namelist PARM01; remove unused recip_rhoNil from PARAMS.h; |
1635 |
|
- change default celsius2K from 273.16 to 273.15 |
1636 |
|
- to keep results unchanged, add back old value of celsius2K in verification |
1637 |
|
exp. input*/data : aim.5l_cs, 1D_ocean_ice_column, lab_sea (fwd), |
1638 |
|
global_ocean.cs32x15(seaice) & cpl_aim+ocn(input_atm). |
1639 |
|
o model/src: add a little initialisation trick to find_rho.F and find_alpha.F |
1640 |
|
to make TAF generate vectorizable code |
1641 |
|
o pkg/seaice/seaice_evp.F: add code (copied from CICE) that avoids underflows. |
1642 |
|
Turn on by defining SEAICE_EVP_ELIMINATE_UNDERFLOWS. Most compilers |
1643 |
|
have flags that do this more efficiently. |
1644 |
|
o pkg/diagnostics/diagstats_calc.F |
1645 |
|
- for TARGET_NEC_SX fix the treatment of the scaling factor tmpFac=scaleFact |
1646 |
|
o pkg/obcs (with exch2): |
1647 |
|
- derive OB indices in overlap region from OB-InsideMask (in obcs_init_fixed.F) |
1648 |
|
and remove code (in obcs_readparms.F) which was based on EXCH of indices |
1649 |
|
(through buffer) and did not account for exch2 (e.g., CS-grid) topology. |
1650 |
|
o pkg/exf and seaice exp: |
1651 |
|
- change offline_exf_seaice.seaicetd test exp. to use default DIFF1 value (=0) |
1652 |
|
so that switching off area & heff advection flags does not affect results. |
1653 |
|
- change default EXF_LWDOWN_WITH_EMISSIVITY to #define in EXF_OPTIONS.h |
1654 |
|
- keep exp. seaice_obcs & 1D_ocean_ice_column(ad) unchanged (using #undef |
1655 |
|
EXF_LWDOWN_WITH_EMISSIVITY) and, using pkg/exf default emissivities, update |
1656 |
|
results of verification experiments: 1D_ocean_ice_column(fwd), |
1657 |
|
global_ocean.cs32x15.seaice(fwd+ad) & seaice_dynmix(ad), lab_sea (all 8) |
1658 |
|
and offline_exf_seaice (all 4). |
1659 |
|
o pkg/seaice: |
1660 |
|
- remove array YNEG, RIVER, TMIX (replaced by local var) from common block; |
1661 |
|
remove also areaNm1 & hEffNm1 when SEAICE_GROWTH_LEGACY is undef. |
1662 |
|
- fix bug: areaNm1 & hEffNm1 are needed in seaice_growth (SEAICE_GROWTH_LEGACY) |
1663 |
|
but were not filled when resp. SEAICEadvArea=F & SEAICEadvHeff=F and |
1664 |
|
not multi-dim advection; |
1665 |
|
- fix seaice_growth.F to compile with both SEAICE_GROWTH_LEGACY and |
1666 |
|
SHORTWAVE_HEATING #undef. |
1667 |
|
o optim: make Makefile more robust (?) |
1668 |
|
o pkg/obcs: |
1669 |
|
* fix treatment of obcs_read_pickup for TAF |
1670 |
|
o pkg/shelfice: |
1671 |
|
* add missing initialisation of num_shifwflx |
1672 |
|
* new adjoint verification exp. for isomip |
1673 |
|
* change Prandtl and Schmidt numbers from generic formulations |
1674 |
|
(in terms of model diffus. and visc.) to separate runtime |
1675 |
|
parameters, with Holland and Jenkins (1999) default values. |
1676 |
|
o pkg/exf (interpolation): |
1677 |
|
- extended input field (2 rows) near the N & S poles: |
1678 |
|
* fill in with the symetric value (when even Nb of data in longitude) |
1679 |
|
* add average value at the poles only for scalar quantities ; for vector |
1680 |
|
component interpolation, skip the averaging and keep duplicated values, |
1681 |
|
unless the 2 components have same location (uvInterp=T) in which case |
1682 |
|
interpolate the 2 components together using S/R EXF_INTERP_UV. |
1683 |
|
- new S/R EXF_INTERP_UV to interpolate the 2 components of a vector field |
1684 |
|
together: this allows to account properly for local orientation when |
1685 |
|
averaging at N & S pole. |
1686 |
|
- add CPP option EXF_USE_OLD_INTERP_POLE to recover old results regarding |
1687 |
|
exf-interpolation near N & S poles. Undef by default. |
1688 |
|
- add debug check/print on 1rst iter if debugLevel >=2. |
1689 |
|
o pkg/exf: |
1690 |
|
- change masking flags definition (no longer "parameter"), put them in |
1691 |
|
common block and set them in S/R EXF_INIT_FIXED. |
1692 |
|
- change recognized masking flag from s,u,v to c,w,s since the mask |
1693 |
|
to use (maskC,W,S) depends on position on model grid and has little to |
1694 |
|
do with scalar/vector difference; fix masking if using P-coordinates. |
1695 |
|
- fix masking of wind-stress (was wrong if interpolated or read on A-grid) |
1696 |
|
and update results of exp. global_with_exf (x2). |
1697 |
|
- fix setting of zenith-angle table when SHORTWAVE_HEATING is undef. |
1698 |
|
o pkg/obcs |
1699 |
|
- S/R obcs_calc_stevens: fix a small bug (gammat -> gammas where appropriate) |
1700 |
|
o pkg/exf (interpolation): |
1701 |
|
- assume periodicity in X only if input field cover full longitude range. |
1702 |
|
- improve search for lat. index (supposed to be faster, in ~log2(ny) steps, |
1703 |
|
and should vectorise). |
1704 |
|
- fix input lat of the 2 added row (in case we provide N.pole data). |
1705 |
|
|
1706 |
|
checkpoint63h (2011/12/30) |
1707 |
|
o pkg/seaice: |
1708 |
|
- change declaration of UVM from _RL to _RS in order to get B-grid |
1709 |
|
uIce,vIce monitor when _RS = real*4 |
1710 |
|
o pkg/offline: |
1711 |
|
- new S/R OFFLINE_RESET_PARMS for resetting main-model params (switch off flags); |
1712 |
|
- compute vertical velocity if not read from file (switch on exactConserv |
1713 |
|
& staggerTimeStep); |
1714 |
|
- fix output of ptracer monitor iter & time for default PTRACERS_monitorFreq. |
1715 |
|
o verification: |
1716 |
|
- update grid-files (in tutorial_held_suarez_cs/input and fizhi-cs-32x32x40/input) |
1717 |
|
with grid-angle generated using "utils/matlab/cs_grid/cubeCalcAngle.m": |
1718 |
|
fix Pb in yG definition @ 2 missing corners (previously yG was averaged); |
1719 |
|
- update output of exp. global_ocean.cs32x15.viscA4 after changing |
1720 |
|
grid-file angles (used here for coriolis-3d); |
1721 |
|
- remove (or gzip) few files not needed to run fizhi-cs experiments. |
1722 |
|
o pkg/exf (vector interpolation): |
1723 |
|
- rotate vector component toward local grid-axis orientation using grid-angles |
1724 |
|
(stored in GRID.h) instead of locally computed rotation angle; keep old code |
1725 |
|
available with exf option EXF_USE_OLD_VEC_ROTATION (undef by default). |
1726 |
|
o pkg/seaice: |
1727 |
|
- allow to compile with exf options ALLOW_ATM_TEMP or ALLOW_DOWNWARD_RADIATION |
1728 |
|
undefined. Fix and remove the stop when ALLOW_RUNOFF is undefined. |
1729 |
|
o pkg/PKG_OPTIONS.h files: |
1730 |
|
- move #include "CPP_OPTIONS.h" just after #include "PACKAGES_CONFIG.h", |
1731 |
|
outside of the #ifdef ALLOW_THISPKG / #endif block. |
1732 |
|
- update verification/*/code/PKG_OPTIONS.h files. |
1733 |
|
o add a verification experiment (offline_exf_seaice/input.seaice) that test |
1734 |
|
the B-grid LSOR solver |
1735 |
|
o pkg/seaice: sort out emissivity and long wave radiation step 2: |
1736 |
|
- add emissivity for snow and ice as new run-time parameters |
1737 |
|
(unfortunately) that default to the corresponding exf values; this |
1738 |
|
changes results in most verification experiments so that for backward |
1739 |
|
compatibility these parameter have to be set explicitly to inconsistent |
1740 |
|
values (ugly); |
1741 |
|
- the exf-flag EXF_LWDOWN_WITH_EMISSIVITY then gets rid off the hard-wired |
1742 |
|
emissivities of 0.97 associated with lwdownloc in S/R seaice_solve4temp |
1743 |
|
until we agree how to handle this bug properly |
1744 |
|
o pkg/exf (interpolation): |
1745 |
|
- add a set of run-time param ({inputfield}_interpMethod), one for |
1746 |
|
each interpolated input field, to select the interpolation method |
1747 |
|
with a value of zero switching off the interpolation; |
1748 |
|
- print interpolation parameters to standard output; |
1749 |
|
- refine exf_check.F accordingly ; stop if USE_NO_INTERP_RUNOFF is defined |
1750 |
|
(to use instead runoff_interpMethod=0 in data.exf). |
1751 |
|
- simplify default setting of interpolation parameters (for all fields, |
1752 |
|
set position to match model grid cell-center position, leading to trivial |
1753 |
|
interpolation in case of regular Lat-Lon grid) and fix for the case of |
1754 |
|
non-uniform delY. |
1755 |
|
o pkg/exf/exf_radiation.F: add the factor ocean_emissivity to lwdown, for |
1756 |
|
within #ifdef EXF_LWDOWN_WITH_EMISSIVITY/#endif. Unless ocean_emissivity=1. |
1757 |
|
this factor is absolutely required, because the lw exitance (= out-going |
1758 |
|
long wave radiation) is emissivity*stefanBoltzmann*T^4 + rho*lwdown, |
1759 |
|
where the reflectivity rho = 1-emissivity for conservation reasons. Once |
1760 |
|
this is established, we can remove the CPP-Flag (if we want to). |
1761 |
|
o pkg/seaice: |
1762 |
|
- qualify a stop statement in S/R seaice_check: EXF_READ_EVAP and |
1763 |
|
ALLOW_BULKFORMULAE are only required if SEAICE_EXTERNAL_FLUXES is defined |
1764 |
|
- sort out emissivity and long wave radiation, step 1: make SEAICE_emissivity |
1765 |
|
what the name implies (and not emissivity*BoltzmannConstant), this means |
1766 |
|
the old default value of 5.5e-8 now means |
1767 |
|
5.5e-8/5.670e-8 = 0.97001763668430343479 as ocean_emissivity in |
1768 |
|
S/R exf_readparms |
1769 |
|
- FV-discretization of the B-grid LSOR solver, turn on with |
1770 |
|
SEAICE_LSRBNEW. This new solver also involves a slight re-organization |
1771 |
|
of the calling routine dynsolver, so that B and C-grid code look a |
1772 |
|
little more alike. |
1773 |
|
- fix index bugs in ostres.F (B-grid code) |
1774 |
|
o pkg/seaice/seaice_ocean_budget.F: change (unused) code to make it look better |
1775 |
|
o pkg/seaice/seaice_readparms.F: make ocean_emissivity*stefanBoltzmann the |
1776 |
|
default for SEAICE_emissivity, if useEXF; requires setting a wrong |
1777 |
|
parameter value in global_ocean.cs32x15/input.seaice/data.seaice for |
1778 |
|
backward compatiblity |
1779 |
|
o model/src: use sigmaR in calc_ivdc |
1780 |
|
|
1781 |
|
checkpoint63g (2011/12/16) |
1782 |
|
o pkg/seaice/seaice_growth.F: |
1783 |
|
fix heat conservation of the coupled ocean-seaice system. |
1784 |
|
when SEAICE_HEAT_CONSERV_FIX is defined, the mismatch of |
1785 |
|
solid vs liquid water treatment is resolved via QNET. |
1786 |
|
o pkg/seaice/seaice_growth.F: |
1787 |
|
add missing term for sublimation in saltFlux, which was breaking conservation. |
1788 |
|
o pkg/seaice/seaice_model.F: |
1789 |
|
Remove this patholigical case treatment in evolution branch, |
1790 |
|
where it is un-necessary and breaks conservation. |
1791 |
|
Update global_ocean.cs32x15/results accordingly for |
1792 |
|
output.seaice.txt output_adm.seaice.txt and output_adm.seaice_dynmix.txt |
1793 |
|
o model/src: |
1794 |
|
useRealFreshWaterFlux: remove masking of EmPmP (using maskInC) in |
1795 |
|
external_forcing_surf.F and apply mask directly in S/R SOLVE_FOR_PRESSURE. |
1796 |
|
o pkg/obcs: |
1797 |
|
modify Stevens boundary conditions so that S/R obcs_calc_stevens computes |
1798 |
|
tendency for temperature and salinity that is then applied to update |
1799 |
|
theta and salt in S/R obcs_apply_ts; this requires proper masking of all |
1800 |
|
horizontal advection and diffusion contributions on the boundary (in |
1801 |
|
S/Rs gad_advection, gad_calc_rhs, gmredi_rtransport, gmredi_calc_diff), and |
1802 |
|
removing the mask in S/R timestep_tracer. The advantage of this approach is |
1803 |
|
that the updated tracer values include contributions from the surface |
1804 |
|
forcing and vertical diffusion. |
1805 |
|
This modification changes exp4.stevens because of vertical diffusion. |
1806 |
|
o model/src: |
1807 |
|
change non-curvilinear grid setting to also work with exch2 + blank tiles: |
1808 |
|
- move delX,delY to new header file (SET_GRID.h) and adjust length to 1rst |
1809 |
|
face dimensions. |
1810 |
|
- new S/R INI_LOCAL_GRID to define model tile-local grid (using same units |
1811 |
|
as delX,delY) and called from S/R INI_CARTESIAN_GRID, INI_CYLINDER_GRID |
1812 |
|
and INI_SPHERICAL_POLAR_GRID. |
1813 |
|
change test-experiment global_ocean.90x40x15: |
1814 |
|
- split the domain in many more tiles (9x4 tiles of 10x10 each); |
1815 |
|
- switch to exch2 and remove 1 blank-tile (but only for MPI test). |
1816 |
|
- update results of both test (std & dwnslp). |
1817 |
|
o pkg/diagnostics/diagstat_calc.F: fix problem with non-initialised halos in |
1818 |
|
tmp-fields for TARGET_NEC_SX at the cost of extra loops and less vectorisation |
1819 |
|
o model/src: |
1820 |
|
- take sigma-coords related code out of update_etah.F into new S/R UPDATE_ETAWS |
1821 |
|
and fix initialisation when using sigma-coords. |
1822 |
|
o model/src: |
1823 |
|
- improve Gael's changes from Jan 14, 2011 "addition of an 'update' of hfacc etc. |
1824 |
|
to their current value at the beginning of forward_step.F": add a new run-time |
1825 |
|
switch "doResetHFactors" (default=false) and use it to do (or not) the resetting. |
1826 |
|
- set doResetHFactors=T in the following test exp: |
1827 |
|
global_ocean.90x40x15/input (rStar) & input.dwnslp (linFS), |
1828 |
|
global_ocean.cs32x15/input.seaice (rStar), hs94.cs-32x32x5/input.impIGW (linFS) |
1829 |
|
and tutorial_global_oce_in_p (nonLinFS in p) |
1830 |
|
o pkg/ecco |
1831 |
|
- added IES cost term |
1832 |
|
o verification/advect_xz |
1833 |
|
- scale down the depth by 1/100 (from 200 km to just 2.km) |
1834 |
|
- add secondary test using divergent flow, r-star and implicit vertical advection. |
1835 |
|
- add note (check_conserve_TS.txt) and matlab script to check global |
1836 |
|
conservation of T & S with NonLin-FreeSurf and Adams-Bashforth. |
1837 |
|
o pkg/rbcs: |
1838 |
|
- add missing relaxUFile & relaxVFile in namelist (in rbcs_readparms.F). |
1839 |
|
o pkg/obcs (Stevens BCs): |
1840 |
|
- fix various problems in the phase speed computations of the Stevens |
1841 |
|
boundary conditions: |
1842 |
|
- sign error for western and southern boundaries, |
1843 |
|
- time tendencies were underestimated by factor of dTracerLev and some just |
1844 |
|
zero (for multidim advection schemes) -> now estimate time tendencies |
1845 |
|
from difference between previous (n) time level and the one before (n-1); |
1846 |
|
this requires storing a field per tracer per boundary, also in the pickup |
1847 |
|
files. |
1848 |
|
- replace deltaTmom in cflMer/Zon computation with dTracerLev |
1849 |
|
- set default phase velocity to cflMer/Zon |
1850 |
|
- update verification experiment exp4.stevens |
1851 |
|
o pkg/generic_advdiff (implicit_r): |
1852 |
|
- fix implicit vertical advection conservation with AB and/or NonLin-FreeSurf |
1853 |
|
(remove Tr*d/dz(w) in gad_implicit_r.F and add it in gad_calc_rhs.F); |
1854 |
|
- fix implicit vertical diffusion or advection with NonLin FreeSurf |
1855 |
|
(was using current recip_hFacC instead of future recip_hFacC): set future |
1856 |
|
recip_hFac in thermodynamics.F and pass & use it in all vertical implicit |
1857 |
|
solver S/R ; |
1858 |
|
- fill diagnostics of vertical advective fluxes (computed from tendency) |
1859 |
|
when using implicit vert. advection; |
1860 |
|
- update output of exp that uses NonLin-FreeSurf & implicit vertical diffusion: |
1861 |
|
global_ocean.90x40x15 (fwd+AD), global_ocean.cs32x15 (4 fwd +4 AD), |
1862 |
|
tutorial_global_oce_in_p (fwd), tutorial_tracer_adjsens (AD) |
1863 |
|
and cpl_aim+ocn (used in ocean); to be fixed: bottom_ctrl_5x5. |
1864 |
|
o pkg/diagnostics: |
1865 |
|
- add diags for T & S tendency which goes through Adams-Bashforth. |
1866 |
|
|
1867 |
|
checkpoint63f (2011/11/30) |
1868 |
|
o pkg/obcs/obcs_calc_stevens.F: |
1869 |
|
- join some loops to reduce number of if-statements |
1870 |
|
- fix a bug in code for northern and southern boundaries. |
1871 |
|
o pkg/seaice/seaice_init_varia.F |
1872 |
|
- undo resetting UVM=0 that has slipped in unnoticed in r1.49 and |
1873 |
|
caused zero ice-velocities for the B-grid code |
1874 |
|
o pkg/seaice/seaice_init_fixed.F |
1875 |
|
- fix a bug in the initialisation of the second metric terms |
1876 |
|
k2AtC and k2AtZ: k2AtC was set to the value of k2AtZ and k2AtZ was 0. |
1877 |
|
- this affects all seaice configurations with useCurviLinearGrid = .true. |
1878 |
|
and SEAICEuseDynamics = .true. (default) and SEAICEuseMetricTerms |
1879 |
|
= .true. (default) |
1880 |
|
- the only verification experiment affected is global_ocean.cs32x15: |
1881 |
|
icedyn, seaice, and seaice_dynmix (AD) |
1882 |
|
o pkg/thsice/thsice_diagnostics_state.F |
1883 |
|
- only for TARGET_NEC_SX: initialise all of tmpFld, so that overlap does |
1884 |
|
not contain garbage that can lead to surprises in diagstats_calc.F |
1885 |
|
o model/src: |
1886 |
|
- move bi,bj loops inside INTEGR_CONTINUITY ; |
1887 |
|
- call INTEGR_CONTINUITY directly from forward_step.F |
1888 |
|
(previously called from momentum_correction_step.F) |
1889 |
|
- call UPDATE_ETAH from integr_continuity.F and update initialise_varia.F, |
1890 |
|
forward_step.F and pkg/ecco/the_main_loop.F |
1891 |
|
o model/src/do_oceanic_phys.F: |
1892 |
|
- reset addMass to zero only if useICEFRONT ; |
1893 |
|
- separated k-loop for rhoInSitu calculation ; |
1894 |
|
- add 2 diagnostics for wVel*delta^k(Rho) at constant pressure (= WdRHO_P) |
1895 |
|
and at constant T,S (= WdRHOdP); |
1896 |
|
NOTE: change diagnostics WRHOMASS : this is now simply the Vertical transport |
1897 |
|
of In-Situ Density (Anomaly) (=wVel*rho^bar-k) (previously was Vertical |
1898 |
|
transport of locally-referenced potential density); |
1899 |
|
to recover old diag: (WRHOMASS)_old = (WRHOMASS)_new -1/2 * (WdRHOdP) |
1900 |
|
o gluemnc: |
1901 |
|
- replace ncrcat with ncks when adding variables to *.glob.nc |
1902 |
|
- change the way variables without record dimensions are handled so that |
1903 |
|
files that have variables with and without record variables can be glued: |
1904 |
|
add a record dimension with a new unique name to be able to differentiate |
1905 |
|
between variable with and without a-prior record dimensions. Remove |
1906 |
|
this record dimension before adding the variable to the *.glob.nc file. |
1907 |
|
This procedure automatically works also for grid.*.nc files that do not |
1908 |
|
have any record dimension. |
1909 |
|
o verification/cpl_aim+ocn: |
1910 |
|
- generate new reference output on baudelaire (gfortran, mpich2) (previously |
1911 |
|
from old aces-grid cluster, ao + ifort) and update 'run_cpl_test' script. |
1912 |
|
o pkg/obcs/obcs_calc_stevens.F: |
1913 |
|
- add code for northern and southern boundaries. |
1914 |
|
- reorder some loops to save some operations and so that drFBar can be scalar |
1915 |
|
o model/src: |
1916 |
|
- re-arrange extrapolation calculation in Adams-Bashforth S/R (affects machine |
1917 |
|
truncation) and add diagnostics for Adams-Bashforth tendency increment. |
1918 |
|
- update test-exp. AD output: |
1919 |
|
1D_ocean_ice_column, bottom_ctrl_5x5, lab_sea.noseaicedyn, obcs_ctrl; |
1920 |
|
and FWD output: exp4 (x3), fizhi-cs-32x32x40, fizhi-cs-aqualev20, |
1921 |
|
front_relax (x3), global_ocean.90x40x15 (x2), global_ocean.cs32x15 (x5), |
1922 |
|
global_ocean_ebm, ideal_2D_oce, internal_wave, isomip (x3), lab_sea (x4), |
1923 |
|
matrix_example, MLAdjust (x5), natl_box (x2), tutorial_advection_in_gyre, |
1924 |
|
tutorial_global_oce_in_p, tutorial_global_oce_latlon and |
1925 |
|
tutorial_plume_on_slope. |
1926 |
|
o pkg/diagnostics/diagstats_calc.F: add special code for TARGET_NEC_SX |
1927 |
|
that vectorises. This code uses 3 extra 2D fields, F90 array assignments |
1928 |
|
and F90 intrinsic routines SUM, MINVAL, MAXVAL, but since TARGET_NEC_SX |
1929 |
|
does not even come with an F77 compiler anymore, this should not be |
1930 |
|
a limitation |
1931 |
|
|
1932 |
|
checkpoint63e (2011/11/06) |
1933 |
|
o pkg/seaice adjoint of LSR: |
1934 |
|
- substantially rework STORE dirs. |
1935 |
|
- add new flag SEAICE_LSR_ADJOINT_ITER and parameter SOLV_MAX_FIXED |
1936 |
|
this flag will do SOLV_MAX_ITERS but only store SOLV_MAX_FIXED fields |
1937 |
|
and only perform SOLV_MAX_FIXED adjoint iters. |
1938 |
|
If flag SEAICE_LSR_ADJOINT_ITER is undef-ined, the store in the iteration |
1939 |
|
always goes to same record, meaning that the last forward field will be |
1940 |
|
the one used in the adjoint - an approximation. |
1941 |
|
- now produces non-zero LSR-related gradients, and acceptable gradients for |
1942 |
|
An's zonal (x-z) test case (to be checked in) |
1943 |
|
- lab_sea: produces acceptable gradients for lab_sea with forward/backward LSR |
1944 |
|
(but these are screwed up by the thermodynamics in the first place); |
1945 |
|
reduce from 4 to 3 timesteps to avoid t.d. issue as temporary solution; |
1946 |
|
output_adm.txt also reflects changes to seaice_lsr |
1947 |
|
- global_ocean.cs32x15: |
1948 |
|
* the "default" input_ad.seaice has been re-defined to always exclude dynamics |
1949 |
|
(output_adm.seaice.txt was updated) |
1950 |
|
* new input_ad.seaice_dynmix tests a forward LSR / backward free-drift |
1951 |
|
(output_adm.seaice_dynmix.txt) |
1952 |
|
o test-exp. exp4+stevens: |
1953 |
|
- switch off pTracers and nonHydrostatic (restart problems with NH); update output |
1954 |
|
o pkg/seaice (lsr solver): |
1955 |
|
- put coriolis term into FORCEX,Y (as in seaice_evp.F; previously in rhsU,V only); |
1956 |
|
update output (change truncation) of FWD test exp lab_sea & global_ocean.cs32x15 |
1957 |
|
- fix SEAICEuseFREEDRIFT for new OBCS version (ndef OBCS_UVICE_OLD) |
1958 |
|
- new parameter "LSR_mixIniGuess" allows (if=2,4) to mix free-drift solution |
1959 |
|
into initial guess for linearised solver; use weight ~ (1/err)^2,4. |
1960 |
|
- compute (with new S/R) and print initial (+ free-driff sol. if available) |
1961 |
|
and final residual of linearised system. |
1962 |
|
o pkg/pp81: add diagnostics for vertical eddy viscosity and diffusivity |
1963 |
|
(requires new subroutines pp81_init_fixed.F/pp81_diagnostics_init.F) |
1964 |
|
o pkg/obcs: Stevens BCs (still only for east and west) |
1965 |
|
- fix Stevens BCs by using intermediate velocities of previous |
1966 |
|
time step as "baroclinic" contribution rather velocity of one grid cell |
1967 |
|
inside the boundaries; more consistent but makes the entire treatment |
1968 |
|
more complicated, requires new pickup files and two new S/Rs: |
1969 |
|
obcs_copy_uv_n and obcs_save_uv_n |
1970 |
|
keep old version with flag OBCS_STEVENS_USE_INTERIOR_VELOCITY |
1971 |
|
(undefined by default) |
1972 |
|
- silently move computation of some grid factors into separate loops to |
1973 |
|
save some recomputations |
1974 |
|
- add a hack for non-linear free surface |
1975 |
|
- add a verification experiment to exp4 that tests this code |
1976 |
|
o make gluemnc/xplodemnc work with (moron) non-GNU shell tools |
1977 |
|
|
1978 |
|
checkpoint63d (2011/10/25) |
1979 |
|
o pkg/obcs + seaice-dynamics: |
1980 |
|
- new implementation calls OBCS_APPLY_UVICE (in seaice_dynsolver.F) before |
1981 |
|
solving for uIce,vIce and prevent SEAICE_LSR or SEAICE_EVP to modify OB |
1982 |
|
values (consistent with an implicit method). |
1983 |
|
- add option OBCS_UVICE_OLD (in OBCS_OPTIONS.h, defined by default) to |
1984 |
|
return to older implementation (same results as before); note that none of |
1985 |
|
the "experimental" OBCS_SEAICE options are implemented in the new version. |
1986 |
|
- switch test exp. seaice_obcs to use new version (update output). |
1987 |
|
o pkg/seaice: |
1988 |
|
- add few stop (B-grid & CS-exch, B-grid & obcs, AUTODIFF & SEAICE_maskRHS) |
1989 |
|
- add parenthesis in Water-Ice drag calculations (evp & lsr); |
1990 |
|
- in seaice_lsr.F, simplify and fix AA3 setting in case sNx or sNy=1; |
1991 |
|
and fix case SEAICE_waterDrag=0 (but unstable if no or little seaice) |
1992 |
|
- update output of test exp lab_sea that uses evp or lsr (fwd+ad) |
1993 |
|
and global_ocean.cs32x15 (icedyn & seaice fwd+ad). |
1994 |
|
o pkg/layers: |
1995 |
|
- Include potential density as new coordinate (Thanks to David Munday) |
1996 |
|
o pkg/dic: |
1997 |
|
- Remove subroutine CALC_PCO2_APPROX_CO3 from carbon_chem.F and add |
1998 |
|
carbonate computation/output to CALC_PCO2_APPROX |
1999 |
|
o pkg/generic_advdiff |
2000 |
|
- make TAF generate code that vectorizes: |
2001 |
|
gad_dst3fl_adv_*.F, gad_u3c4_impl_r.F |
2002 |
|
o model/src: |
2003 |
|
- improve vectorization also for adjoint code of |
2004 |
|
solve_tridiagonal and solve_pentadiagonal. As this requires up to |
2005 |
|
5 new 3D-fields, this code is only turned on for the combination of |
2006 |
|
ALLOW_AUTODIFF_TAMC and TARGET_NEC_SX. Also remove error message |
2007 |
|
for singular matrix check (only for TARGET_NEC_SX). |
2008 |
|
- remove hard-wiring of CPP-flag ALLOW_SOLVERS_KLOOPINSIDE to |
2009 |
|
ALLOW_AUTODIFF. This flag now needs to be set outside of |
2010 |
|
solve_tri/pentadiagonal.F |
2011 |
|
o pkg/exf: |
2012 |
|
- fix previous modif in exf_readparms.F (revision 1.66: treatment of |
2013 |
|
optional namelist EXF_NML_OBCS). |
2014 |
|
- add many debug-print (to trace down where pkg/cal error msg comes from) |
2015 |
|
o pkg/mom_vecinv/mom_vi_hdissip.F |
2016 |
|
- rearrange loops so that vectorization is improved and in particular |
2017 |
|
the adjoint routine vectorizes. The code is a little longer now, but I |
2018 |
|
think easier to read. |
2019 |
|
Note: CPP-flag MOM_VI_ORIGINAL_VISCA4 is not tested. |
2020 |
|
o pkg/seaice: |
2021 |
|
- allow to specify initial seaice velocity from files (uIceFile,vIceFile) |
2022 |
|
o pkg/exch2: |
2023 |
|
- alternative code (without tile x tile matrix) for cumulated (global) sum; |
2024 |
|
used as default; keep using matrix version in adjustment.cs-32x32x1. |
2025 |
|
o tools/build_options: |
2026 |
|
- after merging some MPI and/or multi-threads specific optfiles so that |
2027 |
|
the modified default optfile support both built (using genmake2 -mpi |
2028 |
|
for the MPI built, using genmake2 -omp for OpenMP built), |
2029 |
|
move now obsolete optfiles to tools/build_options/unsupported/ |
2030 |
|
(add copy of email sent to support list in doc/optfiles_changes.txt) |
2031 |
|
|
2032 |
|
checkpoint63c (2011/09/28) |
2033 |
|
o pkg/ebm: |
2034 |
|
- fix ebm_zonalmean.F for several procs in Ydir (nPy > 1); update output of |
2035 |
|
test exp. global_ocean_ebm (affects machine truncation, 12 digits for cg2d) |
2036 |
|
o pkg/seaice (SItracer pickup) |
2037 |
|
* Simple code for pickup of SItracer fields (#define ALLOW_SITRACER) |
2038 |
|
To be done: |
2039 |
|
- thorough testing of missing fields in S/R seaice_read_pickup |
2040 |
|
- thorough matching between generic tracers and specific fields used |
2041 |
|
(e.g. volume-weighted age, area-weighted age, salinity, ...) |
2042 |
|
o pkg/grdchk: |
2043 |
|
- all procs calculate and print finite-difference gradient (for testreport) |
2044 |
|
- change description output used by testreport; |
2045 |
|
- AD testing: also compare and report Finite-difference gradient; |
2046 |
|
=> update all output_adm*.txt |
2047 |
|
o test exp. global_ocean_ebm: |
2048 |
|
- switch back useRealFreshWaterFlux (no problem anymore with run-off); |
2049 |
|
and turn on exactConserve; update (fwd) output. |
2050 |
|
o pkg/seaice (LSR): |
2051 |
|
- print to STDOUT number of solver iterations at SEAICE_monFreq interval. |
2052 |
|
- modify solver to deal cleanly with u/v switch at face edges (CS-grid): |
2053 |
|
* identical results with non-CS topology (but save up to half of EXCH calls) |
2054 |
|
* no much changes in cs-32 verification tests since no ice at face edges |
2055 |
|
(differences due to convergence criteria, since nb of iterations changed) |
2056 |
|
* expect some differences on lat-lon-cap grid. |
2057 |
|
update FWD results of global_ocean.cs32x15 test exp. (icedyn & seaice) |
2058 |
|
o pkg/exch2: |
2059 |
|
- add new CPP option to disable Cumul-Sum matrix (to save storage when using |
2060 |
|
many tiles); until alternative coding is added, just add a stop. |
2061 |
|
o pkg/kpp: |
2062 |
|
- move ptracer/salt correction to KPP diffusivity from calc_3d_diffusivity.F |
2063 |
|
to S/R KPP_CALC_DIFF_PTR (+ add tracer-index to argument list). |
2064 |
|
o optfiles: |
2065 |
|
- merged few MPI specific (*+mpi*) and multi-threads specific (*+mth) optfiles |
2066 |
|
into corresponding standard one, which now support different build: |
2067 |
|
(when using "genmake2 -mpi" for MPI built, "genmake2 -omp" for OpenMP built) |
2068 |
|
- add "darwin_amd64_gfortran" optfile (initially from Constantinos, tested by Gael) |
2069 |
|
o pkg/obcs (seaice): |
2070 |
|
- add missing EXCH for uIce,vIce after applying OBCS; |
2071 |
|
- remove S/R EXF_SWAPFFIELDS_X/Y , disable S/R EXF_SET_OBCS_X/Y by adding |
2072 |
|
argument = number of levels to S/R EXF_SWAPFFIELDS_XZ/YZ and S/R |
2073 |
|
EXF_SET_OBCS_XZ/YZ ; update obcs_exf_load.F; |
2074 |
|
- fix EXF_SET_OBCS_XZ/YZ for multi-threaded (assuming loaded arrays are shared) |
2075 |
|
- verification exp. seaice_obcs: split domain in 2 tiles ; add SIZE.h_mpi |
2076 |
|
and eedata.mth for MPI and mutlti-threaded testing. |
2077 |
|
o pkg/flt: |
2078 |
|
- make FLT EXCH working with multi-threads (and MPI + multi-threads); |
2079 |
|
- use buffer for floats IO (trajectories & profiles); size set in FLT_SIZE.h; |
2080 |
|
- fix pickup and trajectories + profiles output with multi-threads; |
2081 |
|
- add parameter to select group of fields to write along trajectory and |
2082 |
|
profile (default unchanged); |
2083 |
|
- only call PORT_RAND* function when flt_noise <> 0; |
2084 |
|
- add multi-threaded test for verification exp. flt_example. |
2085 |
|
o eesupp/src: |
2086 |
|
- fix S/R ALL_PROC_DIE for MPI+multi-threads. |
2087 |
|
- USE_OMP_THREADING: check that number of threads (from eedata) matches |
2088 |
|
actual number (from env.var. setting). |
2089 |
|
o pkg/ebm: |
2090 |
|
- fix multi-threading in ebm_area_t.F ; clean-up EBM.h header file. |
2091 |
|
- add multi-threaded test for verification exp. global_ocean_ebm |
2092 |
|
|
2093 |
|
checkpoint63b (2011/08/29) |
2094 |
|
o pkg/ebm: |
2095 |
|
- fix sign of runoff; |
2096 |
|
- update directly forcing fields (Qnet,EmPmR) to use standard |
2097 |
|
external_forcing_surf.F (remove ebm_forcing_surf.F); |
2098 |
|
- avoid loading forcing fields a 2nd time (1rst time from ini_forcing.F); |
2099 |
|
- set either tauThetaClimRelax (in data) or tauThetaZonRelax (in data.ebm) |
2100 |
|
and apply relaxation towards corresponding SST field (2-D map or ZonAver). |
2101 |
|
- update global_ocean_ebm parameters file data and update output (fwd+ad). |
2102 |
|
o verification/matrix_example: |
2103 |
|
- split domain in 8 tiles (2x4); add SIZE.h_mpi and eedata.mth for |
2104 |
|
MPI and mutlti-threaded testing. |
2105 |
|
o pkg/matrix: |
2106 |
|
- change name of S/R MATRIX_INIT to S/R MATRIX_INIT_VARIA ; |
2107 |
|
- fix for multi-tiles (add bi,bj indices to exp/impMatrixCounter); |
2108 |
|
- fix for multi-threaded (remove DATA statement); |
2109 |
|
- use standard DIFFERENT_MULTIPLE function; |
2110 |
|
- add MATRIX_OPTIONS.h |
2111 |
|
o verification/matrix_example: |
2112 |
|
To allow to split the domain in several tiles, change the domain size |
2113 |
|
from 31x31 to 32x32 by adding 1 row (on Southern side) + 1 column (on |
2114 |
|
Western side) of land points. |
2115 |
|
o (*_)write_pickup: |
2116 |
|
- fix few bugs in mypackage_read/write_pickup.F |
2117 |
|
- in MDS_WR_METAFILES calls, replace "myTime" by a local copy into |
2118 |
|
array of length 1 (was caught by compiler syntax-check). |
2119 |
|
o pkg/diagnostics (velocity potential solver): |
2120 |
|
- fix initialisation of main diagonal matrix (for overlap values) |
2121 |
|
o tools/build_options: |
2122 |
|
- towards single optfile for MPI and non-MPI built: merge few +mpi optfile |
2123 |
|
into previously non MPI one (linux_am64 pgf77,open64,pathf90,ifort11) |
2124 |
|
- linux_amd64_gfortran: merge +mpi_generic version into standard optfile: |
2125 |
|
* move IEEE flags to DEVEL section; take IEEE flags from +mpi_generic ; |
2126 |
|
* FAST case: for now, keep -O3 with ini_masks_etc.F in NOOPTFILES list; |
2127 |
|
and use "-devel" testreport option for standard testing on baudelaire. |
2128 |
|
o pkg/grdchk: |
2129 |
|
- Assume that all gradient-check position are within the same tile |
2130 |
|
corresponding to global indices (iGloTile,jGloTile) and that |
2131 |
|
positions (i,j indices or nbeg) are local to this tile; |
2132 |
|
- set tile local-indices and proc. number according to tile global-indices; |
2133 |
|
- remove grdchkwhichproc from namelist (retired param); |
2134 |
|
- send adjoint gradient to all procs so that all procs print it to STDOUT; |
2135 |
|
- switch on MPI test for global_ocean.90x40x15 AD test experiment. |
2136 |
|
o adding package bbl (Bottom Boundary Layer) |
2137 |
|
description in MITgcm/pkg/bbl/bbl_description.tex |
2138 |
|
example/test experiment in MITgcm_contrib/bbl |
2139 |
|
o adjoint verifications |
2140 |
|
- changed 5 experiments to multi-tiles |
2141 |
|
* global_ocean.90x40x15 |
2142 |
|
* obcs_ctrl |
2143 |
|
* offline_exf_seaice |
2144 |
|
* tutorial_dic_adjoffline |
2145 |
|
* tutorial_tracer_adjsens |
2146 |
|
changed reference output for those that crossed tile boundaries |
2147 |
|
(changed choices of gradient check positions) |
2148 |
|
- with same tiling, switch on MPI test for the last 4 (add SIZE.h_mpi) |
2149 |
|
- temporary bug fix in grdchk_loc.F for obcs |
2150 |
|
o genmake2 & testreport |
2151 |
|
- add target "obj" (just for OBJFILES files) to Makefile; |
2152 |
|
- add option to specify FEXTRAFLAGS on command line. |
2153 |
|
o pkg/mypackage: |
2154 |
|
- remove bi,bj arguments from argument list of S/R MYPACKAGE_CALC_RHS |
2155 |
|
|
2156 |
|
checkpoint63a (2011/08/02) |
2157 |
|
o pkg/diagnostics (velocity potential): |
2158 |
|
- fix velocity-potential calculation when using OBCS: balance net inflow |
2159 |
|
at each level (new S/R OBCS_DIAG_BALANCE). |
2160 |
|
- fix some of the problems with OBCS in stream-function calculation. |
2161 |
|
o pkg/exf/exf_readparms.F |
2162 |
|
- make treatment of optional namelists (EXF_NML_04, EXF_NML_SGRUNOFF, |
2163 |
|
EXF_NML_OBCS) more consistent, so that you need not have these lists |
2164 |
|
in data.exf when they are not used. |
2165 |
|
o optim/optim_readdata.F: |
2166 |
|
- add some output about obcs variables that might help debugging |
2167 |
|
- add a check about nvarlength |
2168 |
|
o pkg/ctrl: once again, fix computation of endrec in s/r ctrl_init_rec |
2169 |
|
o pkg/diagnostics (velocity potential): |
2170 |
|
- fix mask for OBCS (still problems in stream-function with OBCS); |
2171 |
|
- add specific parameter (default = main code CG2D params) for solver; |
2172 |
|
- in case of poor convergence, use solution corresponding to lowest residual. |
2173 |
|
o pkg/seaice/seaice_growth.F: small changes that permit vectorizable |
2174 |
|
adjoint code. In general statements like tmpscal=fld(i,j) are problematic |
2175 |
|
and should be avoided where possible. |
2176 |
|
o model/src (rStar): |
2177 |
|
- include r* effect on reference-state (PhiRef) in totPhiHyd |
2178 |
|
(so that it's really the potential anomaly at the cell center); |
2179 |
|
affect solution only if z* with full pressure in EOS. |
2180 |
|
- test-exp global_ocean.90x40x15: reduce viscA4 (was not stable) and |
2181 |
|
update output (because of z* in totPhiHyd and viscA4 changes); |
2182 |
|
- keep the previous diagnostics as "PHIHYDcR" (closer to potential anomaly |
2183 |
|
@ constant r) until interpolation at constant r is implemented. |
2184 |
|
o pkg/diagnostics |
2185 |
|
- fix RCENTER diagnostics in case cell center is not at interface middle |
2186 |
|
o add code for TEOS-10 (www.teos-10.org, McDougall et al. 2011). Use |
2187 |
|
this eos with eosType = 'TEOS10', in data (PARM01). This eos implies |
2188 |
|
that THETA and SALT are "conservative temperature" and "absolute |
2189 |
|
salinity" |
2190 |
|
o pkg/ctrl |
2191 |
|
- fix computation of endrec in s/r ctrl_init_rec |
2192 |
|
- ctrl_pack/unpack_*: remove unused variables and some obsolete code |
2193 |
|
o pkg/seaice/seaice_growth.F |
2194 |
|
- fix recomputation with FENTY_AREA_EXPANSION_CONTRACTION code, |
2195 |
|
remove then obsolete STORE directives |
2196 |
|
- fix STORE directives for tice and tices, so that only the |
2197 |
|
appropriate part of the fields are stored (and not the entire |
2198 |
|
field); update global_ocean.cs32x15.seaice AD output. |
2199 |
|
- cosmetic changes: adjust CPP flags and indentation for better |
2200 |
|
legibilty |
2201 |
|
o pkg/autodiff: add mnc-output of adBottomDragFld (code contributed by |
2202 |
|
Chris Wilson) |
2203 |
|
o pkg/gmredi: |
2204 |
|
Add Sub-Meso Eddies parameterisation from Baylor (for now, disabled with TAF), |
2205 |
|
and test it in verification exp. "front_relax.bvp" (update output.bvp.txt) |
2206 |
|
|
2207 |
|
checkpoint63 (2011/07/11) |
2208 |
|
o pkg/exch2: |
2209 |
|
- rename+move: nTiles in W2_EXCH2_PARAMS.h --> exch2_nTiles in W2_EXCH2_TOPOLOGY.h |
2210 |
|
- exch2 version of Cumul-Sum routine: S/R W2_SET_MAP_CUMSUM set up the |
2211 |
|
(2*nTiles)x(nTiles) Cumul-Sum matrix and Master Proc collects all tiles X,Y |
2212 |
|
increments, calculates Cumul-Sum @ tile origin and sends results to each tile. |
2213 |
|
o pkg/diagnostics: |
2214 |
|
- deal with pairs of post-processed diags which are computed together; in |
2215 |
|
particular, re-order list of diags within 1 file to save 2nd computation. |
2216 |
|
- add S/R to compute velocity stream-function (called after velocity-potential |
2217 |
|
calculation) from divergence free transport -> new diagnostics "PsiVEL". |
2218 |
|
- add parameter to select grid-point location where PsiVEL == 0. |
2219 |
|
o eesupp/src: |
2220 |
|
new S/R to calculate cumulated sum on tiled array, corner grid-cell location |
2221 |
|
(specific S/R needed with exch2 topology - for now, just print an error msg) |
2222 |
|
o pkg/shelfice |
2223 |
|
- Implement friction velocity-dependent transfer coefficients following |
2224 |
|
Holland and Jenkins, JPO, 1999 |
2225 |
|
Original code by M. Losch with small modifs. |
2226 |
|
Enable with CPP option SHI_ALLOW_GAMMAFRICT |
2227 |
|
and runtime flag SHELFICEuseGammaFrict |
2228 |
|
o verification lab_sea & global_ocean.cs32x15: |
2229 |
|
- use tools/xmakedepend (instead of cyrus_makedepend, in genmake_local): |
2230 |
|
does not miss some dependencies (but is slower) and also works with many files |
2231 |
|
(default makedepend limitation for AD built). |
2232 |
|
- use cyrus_makedepend in adjustment.128x64x1 (so that it still tested). |
2233 |
|
o pkg/diagnostics: |
2234 |
|
- add run-time parameter "useMissingValue" (def=False) to fill land-point |
2235 |
|
(i.e., where mask=0) with MissingValue ; used only in MNC output file. |
2236 |
|
This replaces CPP-option DIAGNOSTICS_MISSING_VALUE. |
2237 |
|
- Extend the use of "missing_value" setting from data.diagnostics for the case |
2238 |
|
of counter-diagnostics (where fraction-weight is zero). This applies both to |
2239 |
|
MNC and MDS output files. |
2240 |
|
o pkg/seaice/seaice_growth.F: |
2241 |
|
- add 'a priori' cap of latent heat flux based on actual mass considerations |
2242 |
|
when SEAICE_ADD_SUBLIMATION_TO_FWBUDGET is used in conjunction with the |
2243 |
|
non-legacy seaice_solve4temp. |
2244 |
|
- add diagnostic of the residual sublimation freshwater flux (the freshwater |
2245 |
|
flux taken from the ocean if the total actual latent heat fluxes exceed |
2246 |
|
the maximum) |
2247 |
|
- remove the CPP switch around the *_FWbySublim unit change and move diagnostic |
2248 |
|
fill for SIatmQnt, SIfwSubl, SIatmFW to the end of seaice_growth.F. |
2249 |
|
- add diagnostic of the actual sublimation freshwater flux (that is 0. ifndef |
2250 |
|
SEAICE_ADD_SUBLIMATION_TO_FWBUDGET) and of the latent heat flux (evap+sublim). |
2251 |
|
- bug fix : frWtrAtm needs a_FWbySublim ifdef SEAICE_ADD_SUBLIMATION_TO_FWBUDGET. |
2252 |
|
- bug fix : missing part to Martin's r_FWbySublim pathological case fix. |
2253 |
|
o verification 1D_ocean_ice_column: |
2254 |
|
made model domain truly 1x1x23 instead of 5x5x23 with only center cell (3,3,:) wet |
2255 |
|
update results |
2256 |
|
o pkg/diagnostics: |
2257 |
|
- Implement setting of "Post-Processed" diagnostics (corresponding to gdiag(5)='P') |
2258 |
|
which are not filled-up but computed from other diags ; In this case, the mate |
2259 |
|
diag points to the primary (filled-up) diag to used for post processing. |
2260 |
|
- Update Velocity-potential computation using post-processed diag framework. |
2261 |
|
==> Change the ordering of fields and time-periods in MDS output file |
2262 |
|
when using periodic averaging: now writes one time record with the full set |
2263 |
|
of fields for this time period, then the next time reccord (it used to be |
2264 |
|
one field with the full set of time records then the next field). |
2265 |
|
Note: this is now similar to NetCDF (MNC) output file. <== |
2266 |
|
|
2267 |
|
checkpoint62z (2011/06/21) |
2268 |
|
o adjoint monitor: |
2269 |
|
- Add adjoint monitor output for packages exf, seaice |
2270 |
|
and update relevant testreport output |
2271 |
|
o pkg/seaice: |
2272 |
|
- re-order diags inits so that they appear in order in available_diagnostics.log |
2273 |
|
- added diags: hsnow thermo. rates of change, area preceeding ridiging process, |
2274 |
|
area/heff/hsnow preceeding thermodynamic growth/melt. |
2275 |
|
- modified diag: SIdA; output actual effect, as the description states. |
2276 |
|
- modified description: SIqneti, SIqneto, SIuheff, SIvheff, SIdAb*, HSNOW. |
2277 |
|
- retired redundant diags: SIyneg, SIfice, SIsnwice, SIthdgrh. |
2278 |
|
(SIyneg->SIdHbOCN; SIfice->SIdHbATC; SIsnwice->SIdHbFLO; |
2279 |
|
and SIthdgrh->SIdHbOCN+SIdHbATC+SIdHbATO) |
2280 |
|
- modified diags (2) : switch all SIdA*, SIdH*, SIdS* from delta to rates. |
2281 |
|
- added diagnostics for seaice generic tracers (SItr*). |
2282 |
|
- added SItrUnit and SItrNameLong run time param (for SItr* diags). |
2283 |
|
- in diag names, replaced 'PrTh' abbrev. of 'preceeding thermo' with 'PT'. |
2284 |
|
I. Fenty: 18-Jun-2011: |
2285 |
|
Minor changes to seaice package: |
2286 |
|
1) Retired old variables (A22, SEAICE_lhsublim, areaMax, areaMin, hiceMin) and |
2287 |
|
added some new ones (SEAICE_area_reg, SEAICE_hice_reg, SEAICE_area_floor) |
2288 |
|
- Differentiated "regularization variables" from "floor variables" |
2289 |
|
* areaMin became SEAICE_area_reg (old A22) and SEAICE_area_floor |
2290 |
|
* hiceMin became SEAICE_hice_reg (old hiceMin) |
2291 |
|
(with _reg meaning regularization variable) |
2292 |
|
- SEAICE_lhSublim becomes lhSublim, the sum of SEAICE_lhEvap and SEAICE_lhFusion |
2293 |
|
so as to ensure energy conservation when going between phases |
2294 |
|
- A22 was not used anywhere |
2295 |
|
2) Changed regularization procedure for heffActual and hsnowActual to ensure |
2296 |
|
well-boundedness and smooth adjoint in seaice_growth.F |
2297 |
|
3) Fixed a bug where seaice_solve4temp would not recognize ice-free grid cells |
2298 |
|
because the old regularization always set heffActual >= 0.05 cm |
2299 |
|
4) Changed the model so that the default behavior is to put a small (10^-5) "floor" |
2300 |
|
on AREA when HEFF > 0. |
2301 |
|
- went from requiring ALLOW_PRECLUDE_INFINITESIMAL_AREA to be defined to |
2302 |
|
requiring that DISABLE_AREA_FLOOR *not* be defined |
2303 |
|
Affected verifications: |
2304 |
|
- 1D_ocean_ice_column (output.txt output_adm.txt) |
2305 |
|
- global_ocean.cs32x15 (output.seaice.txt output_adm.seaice.txt) |
2306 |
|
o pkg/diagnostics: |
2307 |
|
- move MNC code from diagnostics_out.F into new diagnostics_mnc_out.F (2 S/R). |
2308 |
|
- rename S/R GETDIAG to DIAGNOSTICS_GET_DIAG and change type of 1rst argument |
2309 |
|
(was _RL, now integer) with option = 0 to retrieve all levels. |
2310 |
|
- add pieces of code to compute velocity potential at each level (new diagnostics |
2311 |
|
PhiVEL, works only when UVELMASS & VVELMASS are also turned on); |
2312 |
|
for now, using same params as CG2D (target-resisual, max Nb of iter ...). |
2313 |
|
- fix few issues with counter diagnostics in diagnostics_setdiag.F & |
2314 |
|
diagstats_setdiag.F (if diagnostic counter is itself a counter diag) |
2315 |
|
and in diagnostics_fract_fill.F (do not need a valid pointer for the |
2316 |
|
diagnostics counter-mate); check that definition of counter-diagnostic |
2317 |
|
includes a valid counter-mate (in diagnostics_set_levels.F). |
2318 |
|
o model/src (rStar): |
2319 |
|
- add rStar scaling factor in diags_phi_hyd.F (similar to calc_grad_phi_hyd.F); |
2320 |
|
affect solution only if z* with full pressure in EOS; |
2321 |
|
update output of test-exp global_ocean.90x40x15. |
2322 |
|
o pkg/seaice: |
2323 |
|
- introduce siEps=1e-5 parameter |
2324 |
|
- use areaMax in AREA update (part 4), consistent with ridging step (part 2.5). |
2325 |
|
- re-organize SEAICE_ADD_SUBLIMATION_TO_FWBUDGET code. |
2326 |
|
- introduce ALLOW_SITRACER and seaice_tracer_phys.F to handle generic seaice tracer. |
2327 |
|
For now it covers, and was tested for, ice salinity and age (attached to HEFF), |
2328 |
|
as well as ice cover age and ridging index (attached to AREA). |
2329 |
|
For now the run time parameters (in data.seaice/SEAICE_PARM03) are |
2330 |
|
SItrName (e.g. 'age') and SItrMate ('HEFF', which is the default, or 'AREA'). |
2331 |
|
Up to SItrMaxNum=3 tracers can be used simultaneously. |
2332 |
|
o pkg/salt_plume: |
2333 |
|
-introduce SPsalFRAC run time parameter that sets the fraction of the |
2334 |
|
salt by-product of ice growth (SPsalFRAC*(1-SIsalFRAC)*salt typically) |
2335 |
|
that gets vertically redistributed (fluxed down) by pkg/salt_plume. |
2336 |
|
o model debug options: |
2337 |
|
- Switch reading of debugMode from S/R INI_PARMS (parameter file "data", stored |
2338 |
|
in PARAMS.h) to S/R EESET_PARMS (parameter file "eedata", stored in EEPARAMS.h). |
2339 |
|
- Refine debug-msg printing selection (3 new levels): |
2340 |
|
debugMode : controls printing of debug messages (sequence of S/R calls). |
2341 |
|
debugLevel : controls printing of algorithm-relevant auxiliary/debug messages |
2342 |
|
debLevZero = 0 ; /* level of disabled aux. msg printing */ |
2343 |
|
debLevA = 1 ; /* level of minimum aux. msg printing */ |
2344 |
|
debLevB = 2 ; /* level of low aux. print (report read-file opening)*/ |
2345 |
|
debLevC = 3 ; /* level of moderate debug prt (most pkgs debug msg) */ |
2346 |
|
debLevD = 4 ; /* level of enhanced debug prt (add DEBUG_STATS prt) */ |
2347 |
|
debLevE = 5 ; /* level of extensive debug printing */ |
2348 |
|
New debugLevel default: with default debugMode value (=F), |
2349 |
|
= 2 (debLevB) or = 1 (debLevA) in case ALLOW_AUTODIFF is defined.; |
2350 |
|
and if debugMode=T, default debugLevel = 4 (debLevD). |
2351 |
|
Relation with previous settings: |
2352 |
|
debLevB (=2) corresponds to former debLevA (=1) |
2353 |
|
debLevD (=4) corresponds to former debLevB (=2) |
2354 |
|
Note: |
2355 |
|
a) if debugLevel=0, skip WRITE_GRID call when nIter0 > 0 (same as before); |
2356 |
|
b) default debugLevel=1 is convenient in AD runs (avoid many file opening msgs); |
2357 |
|
to recover previous default, set debugLevel=2 (e.g. AD-test hs94.1x64x5) |
2358 |
|
- Add new parameter (printResidualFreq, read from PARM02 namelist) to print |
2359 |
|
detailed CG solvers convergence; off (=0) by default, except if debugLevel=5. |
2360 |
|
o pkg/obcs: |
2361 |
|
- change OBCSfixTopo default from True to False (should not change the results); |
2362 |
|
keep OBCSfixTopo=T in verification-exp. seaice_obcs. |
2363 |
|
o pkg/thsice: |
2364 |
|
- fix bug in thsice_calc_thickn.F (was introduced in version 1.18) in |
2365 |
|
2nd layer seaice sublimation (unlikely to happen) |
2366 |
|
- use Interior mask for OBCS in thsice_advection.F (similar to what is |
2367 |
|
done in gad_advection & seaice_advection). |
2368 |
|
o adjoint: |
2369 |
|
bug fix spotted by Gael Forget: |
2370 |
|
seaice_advection and thsice_advection still had |
2371 |
|
legacy CPP options to avoid CS corner updates for adjoint |
2372 |
|
o pkg/seaice: |
2373 |
|
=> Change some of the defaults (2011/05/29): |
2374 |
|
- change SEAICEuseFluxForm default (from False to True) |
2375 |
|
- change DIFF1 default (from 0.004 m/s to 0. m/s) |
2376 |
|
And print warnings if DIFF1 is not set in data.seaice and centered |
2377 |
|
avection scheme is used without any diffusion. |
2378 |
|
also: |
2379 |
|
- fix seaice_diffusion calls in default AdvScheme part of seaice_advdiff.F; |
2380 |
|
- set SEAICEdiffKh[] default in the same way as SEAICEadvSch[] |
2381 |
|
- stop if DIFF1<>0 with SEAICEadvScheme <> 2, if DIFF1<>0 with any |
2382 |
|
other non-zero SEAICEdiffKh[] diffusivity, if SEAICEadvSalt=T with |
2383 |
|
#undef SEAICE_VARIABLE_SALINITY, if SEAICEadvAge=T with #undef SEAICE_AGE. |
2384 |
|
update results of test exp.: |
2385 |
|
lab_sea: output.fd (switch to AdvScheme=33 with diffKh=20) |
2386 |
|
output.hb87, output_adm.evp (SEAICEuseFluxForm=T and diffKh=200) |
2387 |
|
output_adm.noseaicedyn (SEAICEuseFluxForm=T) |
2388 |
|
offline_exf_seaice: output.seaicetd, output_adm (SEAICEuseFluxForm=T) |
2389 |
|
seaice_obcs: output (SEAICEuseFluxForm=T) |
2390 |
|
and prescribe old default for SEAICEuseFluxForm (=F) and DIFF1 (=0.004) |
2391 |
|
for standard fwd & AD lab_sea tests (to keep the same output). |
2392 |
|
o pkg/seaice/seaice_growth.F: |
2393 |
|
- use Ian Fenty's capping formulas for actual ice |
2394 |
|
thickness thoughout EVOLUTION branch. |
2395 |
|
- put treatment pathological case #2) in CPP brackets |
2396 |
|
(ALLOW_AVOID_INFINITESIMAL_AREA, undef by default). |
2397 |
|
- update global_ocean.cs32x15 and 1D_ocean_ice_colum results accordingly. |
2398 |
|
o pkg/seaice: |
2399 |
|
- seaice_diffusion.F : remove the min(DX,DY) factor permanently; |
2400 |
|
pass the Laplacian diffusivity (in m^2/s) diffKh as a parameter; |
2401 |
|
also pass fac as a param, which can be 1. (to update the tendency |
2402 |
|
field) or the time step (to update the field itself). |
2403 |
|
- seaice_advdiff.F: for multidim, call seaice_diffusion with |
2404 |
|
e.g. SEAICEdiffKhHeff and with fac=1; for single-dim, call |
2405 |
|
seaice_diffusion with e.g. SEAICEdiffKhHeff and with fac=time step. |
2406 |
|
- SEAICE_PARAMS.h, seaice_readparms.F, seaice_check.F : |
2407 |
|
hooks to handle SEAICEdiffKhHeff, SEAICEdiffKhArea, etc. |
2408 |
|
o pkg/seaice: |
2409 |
|
diffusion with centered advection scheme (diffus.F & advect.F): |
2410 |
|
- simplify S/R DIFFUS (put deltaT & DIFF1 factor outside, move EXCH outside) |
2411 |
|
to just compute the laplacian of input-field. |
2412 |
|
- unroll k loop (harmonic,biharmonic diff) in advect.F to save 1 exch call. |
2413 |
|
- fix flux-form version in diffus.F to conserve tracer. |
2414 |
|
update output of lab_sea.fd & lab_sea.hb87 (1rst set of modif affects |
2415 |
|
machine truncation) and lab_sea.salt_plume (conservative flux-form modif) |
2416 |
|
|
2417 |
|
checkpoint62y (2011/05/26) |
2418 |
|
o pkg/seaice: |
2419 |
|
- seaice_growth.F : in EVOLUTION branch, always include |
2420 |
|
a_QSWbyATM_cover in qnet (as it should be). |
2421 |
|
- verification/global_ocean.cs32x15 : update results accordingly |
2422 |
|
(output.seaice.txt output_adm.seaice.txt). |
2423 |
|
o pkg/seaice + obcs: |
2424 |
|
- use maskInW & maskInS in multi-dim advection and biharmonic diffusion: |
2425 |
|
equivalent of assuming no tracer gradient outside the OB region. |
2426 |
|
update output of seaice_obcs (uses DIFF1 <>0 => biharmonic diffusion) |
2427 |
|
- remove calls to OBCS_COPY_TRACER after EXCH calls (no longer needed |
2428 |
|
after changes above); |
2429 |
|
- obcs+seaice cleaning: apply seaice-tracer OB values to tracer field |
2430 |
|
only at OB location (instead of over a band of OLx width). |
2431 |
|
o pkg/seaice: |
2432 |
|
- fix wrong indices in old (non Flux-Form) diffusion default S/R diffus.F |
2433 |
|
(dxG(I+1, ...) changed to dxG(I, ...), no impact on Lat-Lon grid) |
2434 |
|
o pkg/obcs: |
2435 |
|
- split header file "OBCS.h" into 4 separated files: |
2436 |
|
OBCS_PARAMS.h, OBCS_GRID.h, OBCS_FIELDS.h & OBCS_SEAICE.h |
2437 |
|
Note: OBCS_PARAMS.h & OBCS_GRID.h can be included without OBCS_OPTIONS.h |
2438 |
|
(contain no conditional statement which depends on OBCS options). |
2439 |
|
- move "useOBCSYearlyFields" from "data.obcs" (hold in OBCS_PARAMS.h) |
2440 |
|
to parameter file "data.exf", namelist EXF_NML_OBCS (in EXF_PARAM.h). |
2441 |
|
o ctrl, cost, grdchk & autodiff pkgs: |
2442 |
|
- make options file more standard (like other {PKG}_OPTIONS.h file but |
2443 |
|
with AD_CONFIG.h); clean-up some of the included header files. |
2444 |
|
o pkg/obcs: |
2445 |
|
- do not mask tracer when applying OB (tracer == 0 could generate problems) |
2446 |
|
- apply tracer OB values to tracer field only at OB location (instead of |
2447 |
|
over a band of OLx width) |
2448 |
|
- clean-up obcs_apply_w.F & obcs_apply_eta.F (since less calls to these S/R) |
2449 |
|
- remove OBCS_MULTIDIM_OLD_VERSION code in gad_advection.F and remove |
2450 |
|
obcs_apply_tloc.F & obcs_apply_sloc.F |
2451 |
|
o obcs in model/src: |
2452 |
|
- call OBCS_APPLY_W only if NonHydrostatic. |
2453 |
|
- call OBCS_APPLY_ETA only if NonLinFreeSurf. |
2454 |
|
- reset dEtaHdt and wVel to zero outside OB interior region ; |
2455 |
|
- leave tracer unchanged outside OB interior region: This has no effect |
2456 |
|
on the solution but just to prevent unrealistic tracer value outside OB. |
2457 |
|
- zero out velocity outside OB interior region: This has no effect on |
2458 |
|
the solution but just to prevent unrealistic velocity outside OB. |
2459 |
|
o obcs and non-lin free-surf: |
2460 |
|
move call to OBCS_APPLY_R_STAR from update_r_star.F to calc_r_star.F |
2461 |
|
and call to OBCS_APPLY_SURF_DR from update_surf_dr.F to calc_surf_dr.F |
2462 |
|
+ add argument "etaFld" to OBCS_APPLY_R_STAR & OBCS_APPLY_SURF_DR: |
2463 |
|
this fixes missing EXCH + get consistent eta OB value (+ fix restart). |
2464 |
|
update results of test-exp. exp4(nlfs). |
2465 |
|
o exp4 (nlfs) test-exp: |
2466 |
|
use OBC for Eta at Western & Eastern OB (to test prescribing Eta |
2467 |
|
with NonLin-FreeSurf); update output.nlfs.txt |
2468 |
|
o obcs and 2d/3d solver norm: |
2469 |
|
use interior masks (maskInC) to cancel out cg2d & cg3d matrix coeff at OB |
2470 |
|
and outside OB interior region (will allow to place OB further inside the |
2471 |
|
domain). Depending on the domain, can affects cg2d-Norm (previous |
2472 |
|
cancellation outside OB was only partial), e.g. in exp4 & obcs_ctrl, |
2473 |
|
and cg3d-Norm (previous Norm was computed before canceling OB terms), |
2474 |
|
e.g. in tutorial_plume_on_slope. |
2475 |
|
- update output of exp.: exp4 (x2), obcs_ctrl and tutorial_plume_on_slope. |
2476 |
|
o pkg rbcs: |
2477 |
|
- split RBCS.h into 3 files: RBCS_SIZE.h, RBCS_PARAMS.h & RBCS_FIELDS.h |
2478 |
|
- add capability to apply relaxation to horizontal velocity uVel & vVel. |
2479 |
|
o pkg/grdchk: add gradient check for control variable xx_shifwflx |
2480 |
|
o pkg/shelfice/shelfice_init_fixed.F |
2481 |
|
fix CPP-flag combinations |
2482 |
|
o pkg/seaice: Merge iceage code of Pierre Rampal |
2483 |
|
* update/change/correct ice age calculations |
2484 |
|
* add age updates for pathological cases |
2485 |
|
Probably needs more testing... |
2486 |
|
|
2487 |
|
checkpoint62x (2011/05/13) |
2488 |
|
o pkg/mom_vecinv: |
2489 |
|
high-order vorticity scheme: use interior masks (maskInW & S) |
2490 |
|
to zero-out (outside OB) gradient of vorticity. |
2491 |
|
o verification exp.: |
2492 |
|
turn on "useEnergyConservingCoriolis" (better discretisation) in exp. |
2493 |
|
hs94.128x64x5 and seaice_obcs ; update results. |
2494 |
|
o pkg/obcs: |
2495 |
|
fix bug in OBeta for YZ sections in obcs_exf_load.F |
2496 |
|
o pkg/ctrl, pkg/shelfice, and optim: |
2497 |
|
- add new control variable xx_shifwflx (fresh water flux underneath ice |
2498 |
|
shelves). This is almost as tedious as obcs-ctrl, because the |
2499 |
|
variables needs its own mask. |
2500 |
|
- add a cost function term that penalizes the deviation of xx_shifwflx |
2501 |
|
from the first guess (zero) in analogy to other control variables |
2502 |
|
o pkg/shelfice: |
2503 |
|
- start basic adjoint |
2504 |
|
o pkg/ctrl: |
2505 |
|
- remove extra 2D field "for good measure" when initializing in |
2506 |
|
ctrl_set_globfld_[xy/xz/yz].F |
2507 |
|
- replace hard coded precision 32 (a bug) in ctrl_map_ini_gen by ctrlprec |
2508 |
|
- improve error messages in ctrl_set_unpack_* |
2509 |
|
o OBC implementation in momentum: |
2510 |
|
use interior masks (maskInC,W & S) in momentum S/R: |
2511 |
|
- multiply divergence, tension and some del^i.u or del^j.v by maskInC |
2512 |
|
- multiply del2u,del2v by maskInW/S (biharmonic viscosity) |
2513 |
|
- multiply horiz. grad of vorticity by maskInW/S (in Leith scheme) |
2514 |
|
- multiply gradient of wVel by maskInW/S in del2w calculation (NonHyd) |
2515 |
|
Motivation: fix/clean implementation of OBC with biharmonic-viscosity |
2516 |
|
(and also with Leith/Smagorinsky harmonic-viscosity). |
2517 |
|
Update output of experiment dome and exp4 (+nlfs). |
2518 |
|
o exp4 test-exp: |
2519 |
|
- turn on: nonHydrostatic, exactConserv, viscA4 (with momDissip_In_AB=F) |
2520 |
|
and prescribe time-varying OB (without pkg/exf) for zonal-velocity |
2521 |
|
at Western & Eastern Boundaries (+/- 1 per-cent); Also prescribe |
2522 |
|
time-varying OB at Western-side for wVel (NonHyd); update output. |
2523 |
|
- add secondary set-up (.nlfs) using NonLin FreeSurf (z*) + mom_vecinv |
2524 |
|
and biharmonic-viscosity ; also use prescribed time varying OB. |
2525 |
|
o pkg/obcs: |
2526 |
|
fix bug in OBWeta,OBWeta indices in obcs_apply_r_star.F |
2527 |
|
o model/src: |
2528 |
|
- fix startTime setting when baseTime<>0 & nIter0=0 are specified ; |
2529 |
|
- initialise startTime & nIter0 with unlikely values: allows to set one |
2530 |
|
from the other without ambiguity. |
2531 |
|
o seaice_obcs test-exp.: |
2532 |
|
add small diffK4T,S to test biharmonic diffusivity with OBCS ; update output. |
2533 |
|
o pkg/obcs: |
2534 |
|
- remove calls to OBCS_COPY_TRACER after EXCH for T,S & pTracer: |
2535 |
|
no longer needed with maskInC,W,S in pkg/generic_advdiff. |
2536 |
|
o pkg/seaice: |
2537 |
|
- retired SEAICE_SALINITY and SEAICE_salinity in favor of |
2538 |
|
SEAICE_VARIABLE_SALINITY and SIsalFRAC, respectively. |
2539 |
|
- fixed bug in the initialization of sea ice salinity variable HSALT |
2540 |
|
in seaice_init_varia.F (removed dependence on ICE2WATR) |
2541 |
|
o fizhi-cs test exp.: |
2542 |
|
switch reference output convention for these 2 non-standard test-exp, |
2543 |
|
from: pgi 6.1-5 on faulks (FC.6, -of linux_ia32_pgf77+authors_fc5) |
2544 |
|
to: ifort 11.1 on baudelaire (FC.13, -of linux_amd64_ifort11) |
2545 |
|
reason: faulks might get retired soon and pkg/fizhi has still Pb with gfortran |
2546 |
|
o model/inc: |
2547 |
|
- change type of PmEpR array (from _RS to _RL) to fix restart (with "-use_r4") |
2548 |
|
of exp. global_ocean.90x40x15 (Suncronous time-stepping + Real-FW + NonLin-FS) |
2549 |
|
o pkg/seaice: |
2550 |
|
- fix calculation of saltFlux and saltPlumeFlux when using SEAICE_SALINITY |
2551 |
|
o verification/lab_sea, 1D_ocean_ice_column, seaice_obcs, global_ocean.cs32x15 |
2552 |
|
- updated output*.txt files due to bug fixes in salt, saltPlumeFlux, |
2553 |
|
and initial HSALT |
2554 |
|
|
2555 |
|
checkpoint62w (2011/04/26) |
2556 |
|
o pkg/mom_fluxform: |
2557 |
|
- fix calculation of del2u & del2v (no-slip BC) when using Non-Lin Free-Surf. |
2558 |
|
- use parameter "sideDragFactor" in no-slip BC side-drag part. |
2559 |
|
- update output of exp. global_ocean.90x40x15 |
2560 |
|
o pkg/mom_vecinv: |
2561 |
|
mask del2u & del2v (no effect on results, but cleaner & closer to mom_fluxform) |
2562 |
|
o update seaice exp.: |
2563 |
|
use more consistent parameter values (remove "backward compatability only": |
2564 |
|
ICE2WATR, SEAICE_lhSublim, SEAICE_cpAir, SEAICE_rhoAir + set rhoConstFresh) |
2565 |
|
related to thermodynamics seaice. Update output (fwd+AD) of exp.: |
2566 |
|
1D_ocean_ice_column (x2), lab_sea (x8), ioffline_exf_seaice (x2) & seaice_obcs |
2567 |
|
o update test-exp global_ocean.90x40x15: |
2568 |
|
o use default CD_CODE_OPTIONS file (Adams-Bashforth on CD Mom & Coriolis). |
2569 |
|
o increase Overlap size from 2 to 3 (to allow to test bi-harmonic Visc.) |
2570 |
|
o new pickup-files from a 100.yr run with pkg/down_slope (input.dwnslp params) |
2571 |
|
o turn on zStar & viscA4 in standard set-up (dir input/) |
2572 |
|
and update output files: output.txt & output.dwnslp.txt |
2573 |
|
o new AD-test experiment: obcs_ctrl |
2574 |
|
(From Matt MITgcm_Contrib/SOSE/BoxAdj) to test OBCS as control vector. |
2575 |
|
o pkg/dic: |
2576 |
|
fix two bugs in handling water vapour pressure in carbonate chemistry |
2577 |
|
and air-sea fluxes. Found by Val Bennington and Galen McKinley |
2578 |
|
(add DIC Option = WATERVAP_BUG to recover old results) |
2579 |
|
update output of tutorial_global_oce_biogeo (fwd+AD) & tutorial_dic_adjoffline |
2580 |
|
o adding allowInteriorFreezing option to check for water below freezing point |
2581 |
|
at depth and bring the negative heat anomaly to the surface level |
2582 |
|
o pkgs _fields_load: |
2583 |
|
- extend GET_PERIODIC_INTERVAL to deal with non-periodic case (from pkg/rbcs) |
2584 |
|
- use new S/R GET_PERIODIC_INTERVAL in pkgs: |
2585 |
|
bulk_force, cheapaml, cfc, dic, obcs (+ ctrl/ctrl_get_gen_rec), offline and |
2586 |
|
rbcs to get interpolation weights and time reccord number. |
2587 |
|
- fix multi-threading in aim_fields_load.F |
2588 |
|
- apply EXCH to temp arrays [0,1] after reading in dic_fields_load.F |
2589 |
|
o external_fields_load: |
2590 |
|
new S/R GET_PERIODIC_INTERVAL to calculate which time-record (and linear |
2591 |
|
interpolation weights) to use in a periodic time-series ; do not divide by |
2592 |
|
time-step to convert to integer: |
2593 |
|
- this fixes case where externForcingPeriod is not multiple of time-step |
2594 |
|
(Thanks to Christopher L. Wolfe) |
2595 |
|
- this fixes case where externForcingPeriod is an odd multiple of time-step |
2596 |
|
(was wrong by half of time-step); update results of tutorial_global_oce_in_p. |
2597 |
|
store index of time-record which is currently loaded: |
2598 |
|
- works without any assumption on sequence of calls to EXTERNAL_FIELDS_LOAD ; |
2599 |
|
- needed for the adjoint but not yet used because of extensive recomputations; |
2600 |
|
(to be fixed soon) |
2601 |
|
|
2602 |
|
checkpoint62v (2011/04/02) |
2603 |
|
o verification/1D_ocean_ice_column added to test Ian Fenty's |
2604 |
|
pkg/seaice_growth.F modifications for improving sea ice code differentiability |
2605 |
|
o update output of exp4, internal_wave, seaice_obcs, tutorial_plume_on_slope |
2606 |
|
(new velocity statistics after changing maskInW & maskInS definition) |
2607 |
|
o pkg/generic_advdiff with OBCS: |
2608 |
|
use maksInW & maskInS in advective flux and in biharmonic diffusion calculation: |
2609 |
|
equivalent to assumption of no tracer gradient outside the OB region. |
2610 |
|
This will affect the results if using obcs+biharmonic diffusion. |
2611 |
|
update output_adm.txt of experiment bottom_ctrl_5x5 (not expected since no obc) |
2612 |
|
o pkg/obcs: |
2613 |
|
change definition of maskInW & maskInS: leave OB edges inside (maskIn=1) |
2614 |
|
(e.g., maskInW(OB_Ie)=1 ) so that velocity normal-component at OB is still |
2615 |
|
in Interior region. No impact on solution but affects Velocity monitor stats. |
2616 |
|
o pkg/ptracers (adjoint) |
2617 |
|
New option AUTODIFF_PTRACERS_SPLIT_FILES for writing separate |
2618 |
|
tape file for each tracer |
2619 |
|
o model/inc/src and pkg/autodiff: add parameters that allow to turn |
2620 |
|
of parts of the adjoint code at run time. For now, there are only |
2621 |
|
useKPPinAdMode, useGMrediInAdMode, and useSEAICEinAdMode. These |
2622 |
|
parameters are set in data.pkg. |
2623 |
|
This is the lazy coward's version of doing this, but still useful for |
2624 |
|
debugging. In order to do it right, everything needs to be moved to |
2625 |
|
pkg/autodiff. |
2626 |
|
o pkg/autodiff: fix global_sum_tile_ad.F by resetting adsumPhi at |
2627 |
|
the end; this fixes the adjoint balancing code for open boundaries. |
2628 |
|
o pkg/ctrl: |
2629 |
|
- change behavior of xx_${varname}period to be analogous to exf-conventions: |
2630 |
|
xx_${varname}period = 0., means time-independent control part |
2631 |
|
xx_${varname}period = -12., means one-year-periodic monthly control part |
2632 |
|
- introduce helper routine ctrl_init_rec (part of ctrl_init.F) to |
2633 |
|
clean up ctrl_init a little, remove unused variables |
2634 |
|
- ctrl_init: fixed the handling of the start/endrec for obcs-variables |
2635 |
|
- move "call cal_GetMonthsRec" from s/r ctrl_get_gen to s/r ctrl_get_gen_rec |
2636 |
|
|
2637 |
|
checkpoint62u (2011/03/15) |
2638 |
|
o model/src: |
2639 |
|
- for the adjoint, change NonLin-FreeSurf initialisation sequence: fill-in |
2640 |
|
h0Fac from INITIALISE_FIXED and reset hFac to h0Fac in INITIALISE_VARIA ; |
2641 |
|
- in initialise_varia.F (except for ALLOW_DEPTH_CONTROL) remove 2nd call to |
2642 |
|
INI_DEPTHS, INI_MASKS_ETC & INI_LINEAR_PHISURF. |
2643 |
|
o pkg/ctrl/obcs/ecco: |
2644 |
|
- remove obsolete, unused, and partially broken code: |
2645 |
|
ctrl_obcsvol/ctrl_obcsbal/ctrl_volflux and code within |
2646 |
|
ALLOW_CTRL_OBCS_BALANCE |
2647 |
|
- put a stop statement into ecco/cost_obcsvol.F, but also add |
2648 |
|
cost_obcsvol to ecco_ad_diff.list |
2649 |
|
o pkg/ecco: fix counting cost function contributions for obcs (code |
2650 |
|
by Matt M.) and diffkr for diagnostics |
2651 |
|
o pkg/ecco, pkg/ctrl, pkg/grdchk: |
2652 |
|
add cost penalty terms for initial uvel, vvel, eta controls |
2653 |
|
and I/O for prior error files |
2654 |
|
o pkg/mdsio: |
2655 |
|
move mds_check4file.F from eesupp/src to mdsio_check4file.F ; add option |
2656 |
|
(new argument) to check for tiled file in mdsioLocalDir : this fix the |
2657 |
|
restart from pickup_som , pickup_dic (& dic_co2atm) with mdsioLocalDir. |
2658 |
|
o pkg/ctrl: |
2659 |
|
- ctrl_obcsbal.F, ctrl_obcsvol.F: replace last calls of ctrl_getrec by |
2660 |
|
ctrl_get_gen_rec, put a stop statement into ctrl_getrec. Remove |
2661 |
|
unused and superfluous variables |
2662 |
|
- ctrl_get_gen_rec.F: catch the case of xx_genperiod=0. |
2663 |
|
o pkg/ecco |
2664 |
|
- enable adjoint of Stevens OB |
2665 |
|
o pkg/ctrl/ecco/grdchk: |
2666 |
|
- remove global declaration of tmpfldx/yz and tmpfldx/yz2. |
2667 |
|
Fortunately, we do not have any tests for the numerous cpp-flagged |
2668 |
|
option of "obcs as control parameters" so we will never know |
2669 |
|
if this is an improvement (but at least now things compile). |
2670 |
|
- remove an obsolete initialization from ecco_cost_init_barfiles.F |
2671 |
|
- fix some problems within never used ifdefs to make the code compile |
2672 |
|
o pkg/obcs: |
2673 |
|
- Refine Interior mask definition to work with more complex OB (e.g. |
2674 |
|
if OB_Ie < OB_Iw); In case default setting is not sufficient, allows to |
2675 |
|
read in Interior mask from file. Check if Interior mask is consistent |
2676 |
|
with OB list of indices. |
2677 |
|
o pkg/seaice |
2678 |
|
- beginning code for a seaice tracer package, |
2679 |
|
but currently only used for seaice age: SEAICE_AGE |
2680 |
|
SEAICE_num = 4 |
2681 |
|
iTracer = 1: area-weighted ice age |
2682 |
|
= 2: volume-weighted ice age |
2683 |
|
= 3, 4: template for one-year vs. multi-year ice |
2684 |
|
data.seaice has new namelist SEAICE_PARM03 for arrays related to |
2685 |
|
SEAICE_num |
2686 |
|
|
2687 |
|
checkpoint62t (2011/03/05) |
2688 |
|
o pkg/obcs: |
2689 |
|
- obcs_apply_uv.F: change to a 2 steps method, first tangential component; |
2690 |
|
then normal component. This ensures that the normal component is set |
2691 |
|
correctly even when it conficts with tangential setting from an other OB. |
2692 |
|
Affects results of test-experiment seaice_obcs: update the output.txt |
2693 |
|
o pkg/obcs: |
2694 |
|
- add code to monitor statistics of dynamical fields at OB. |
2695 |
|
- take OBCS_BALANCE code out of obcs_calc.F into new S/R OBCS_BALANCE_FLOW : |
2696 |
|
- fix to OBCS_BALANCE code (right hFac ; deal with simple OB intersection). |
2697 |
|
- change default: balance the Net inflow through all OB (instead of balancing |
2698 |
|
each OB separately); keep the old method if setting OBC_balanceFacX < 0. |
2699 |
|
- switch on useOBCSbalance in dome experiment: only correct Western OB outflow |
2700 |
|
to match Nortern OB inflow (OBCS_balanceFacN=0). |
2701 |
|
o pkg/seaice: |
2702 |
|
- redefined actual sea ice age to be ICEAGE/HEFF ifdef SEAICE_AGE_VOL |
2703 |
|
o pkg/seaice (seaice_growth v 1.113): |
2704 |
|
- reverting seaice_growth to v 1.111 in order to have code with exact bit |
2705 |
|
compatibility with MITgcm_contrib/ifenty/Fenty_seaice_thermo_code_merge |
2706 |
|
CPP option SEAICE_OCN_MELT_ACT_ON_AREA removed in v 1.112 is reintroduced |
2707 |
|
runtime flag SEAICEareaFormula is kept but is inactive |
2708 |
|
o model/src: |
2709 |
|
- add new param to scale curvilinear grid distance and area when using |
2710 |
|
a different sphere radius from the grid-files. |
2711 |
|
- test/check multi-threads EXCH applied to local variable (cg2d_x) |
2712 |
|
o adjoint: |
2713 |
|
- enable adjoint of Stevens OB |
2714 |
|
- add dummy_in_dynamics to enable extraction of ADJrhoinsitu |
2715 |
|
(a bit delicate because of potentially modified adj. common block structure; |
2716 |
|
current switch is ALLOW_AUTODIFF_MONITOR_DIAG, could be changed later) |
2717 |
|
|
2718 |
|
checkpoint62s (2011/02/15) |
2719 |
|
o pkg/seaice (seaice_growth v 1.112): |
2720 |
|
- introduce SEAICEareaFormula run time parameter, which selects the recipe for |
2721 |
|
computing the ice cover tendency from effective thickness tendencies. Include |
2722 |
|
Ian Fenty's formula. |
2723 |
|
- remove 'undef SEAICE_OCN_MELT_ACT_ON_AREA' which may now be achieved using |
2724 |
|
SEAICEareaFormula. |
2725 |
|
- simplify notations for the various d_HEFF/d_AREA terms. |
2726 |
|
o pkg/gmredi: |
2727 |
|
- add Boundary-Value-Problem bolus transport (Ferrari etal, OM 2010) code |
2728 |
|
from Christopher Wolfe (UCSD); add partial cell factor in vertical derivative; |
2729 |
|
add a verification test-run (front_relax.bvp) to test GM_useBVP. |
2730 |
|
o pkg/seaice (seaice_growth v 1.111): |
2731 |
|
- for SEAICE_DO_OPEN_WATER_GROWTH, replace Gael's implementation with Ian's. |
2732 |
|
- the new SEAICE_DO_OPEN_WATER_MELT allows open-water air-sea heat fluxes to |
2733 |
|
also melt ice. |
2734 |
|
o pkg/seaice: |
2735 |
|
- McPhee formula for Ice-Ocean fluxes (provided by Ian Fenty). |
2736 |
|
- can be used by #define MCPHEE_OCEAN_ICE_HEAT_FLUX in SEAICE_OPTIONS.h |
2737 |
|
o pkg/cheapaml: |
2738 |
|
- from Nico Wienders: New version of this package. |
2739 |
|
o pkg/flt: |
2740 |
|
- add CPP options to prevent floats to re-enter the opposite side of |
2741 |
|
a periodic domain (default: keep periodicity) |
2742 |
|
o pkg/gmredi: |
2743 |
|
- apply exchange to GM_PsiX,GM_PsiY to get valid values near CS-corners |
2744 |
|
(needed for multi-dim advection). |
2745 |
|
- switch on GM Advective form in global_ocean.cs32x15 and update output.txt |
2746 |
|
o model/src: |
2747 |
|
- fix wrong re-setting of addMass array (ALLOW_ADDFLUID) for atmospheric run. |
2748 |
|
o tutorial_tracer_adjsens |
2749 |
|
- extend to NLFS and replace maskC by hFacC |
2750 |
|
(change reference output accordingly) |
2751 |
|
|
2752 |
|
checkpoint62r (2011/01/24) |
2753 |
|
o testreport: |
2754 |
|
- add option -deloutp (-do) to remove output file after successful run |
2755 |
|
- add option -mfile (-mf) for MPI machile-file and for each test-exp, |
2756 |
|
extract exact list of procs from this file ; adjust COMMAND by |
2757 |
|
replacing TR_MFILE & TR_NPROC with local machile-file & Nb of MPI procs. |
2758 |
|
o pkg/ecco: replace old ineffective way of penalizing deviations from |
2759 |
|
first guess (of obcs) with code by Matt Mazloff |
2760 |
|
o pkg/ctrl: add code that allows the use of ALLOW_OBCS?_CONTROL without |
2761 |
|
exf/cal |
2762 |
|
- ctrl_init: fix initialisation (computation of diffrec) for obcs-ctrl |
2763 |
|
and handle case of obcs?period == 0 |
2764 |
|
Not affected by these changes: There is still an inconsistency in |
2765 |
|
the computation of start/endrec for the obcs variables for ALLOW_CAL |
2766 |
|
defined (see comment by Menemenlis, 7-Mar-2003) |
2767 |
|
- make S/R ctrl_get_gen_rec return something meaningful even if |
2768 |
|
ALLOW_CAL is not defined |
2769 |
|
- ctrl_getobcs?: simplify code so that it does not need to use |
2770 |
|
S/R exf_swapfields |
2771 |
|
o testreport: |
2772 |
|
allow to test MPI with different number of processors for each experiment: |
2773 |
|
create file "SIZE.h.mpi" in each build dir. |
2774 |
|
Note: update of "-command" argument not yet implemented. |
2775 |
|
o model/src, pkg/autodiff, pkg/ecco, pkg/seaice: |
2776 |
|
alleviate the need for additional 3D tapes when using |
2777 |
|
the non-inear free surface in the adjoint. This is done |
2778 |
|
by adding an 'update' of hfacc etc. to their current |
2779 |
|
value at the beginning of forward_step.F. |
2780 |
|
o pkg/seaice |
2781 |
|
seaice_lsr: move stress-divergence computations out of outer pseudo- |
2782 |
|
timestepping loop |
2783 |
|
o pkg/obcs/obcs_prescribe_read.F: move 'CALL OBCS_EXTERNAL_FIELDS_LOAD' |
2784 |
|
up, so that the calls of the ctrl_* subroutines are really at the end |
2785 |
|
of the routine. |
2786 |
|
o pkg/gmredi: |
2787 |
|
allow to specify a 2-D horizontal map and a 1-D vertical profil |
2788 |
|
as scaling factor for Isopycnal diffusivity (Redi) and GM diffusivity. |
2789 |
|
o pkg/seaice: |
2790 |
|
move lsr iterations from seaice_dynsolver to seaice_lsr. |
2791 |
|
o pkg/seaice: |
2792 |
|
reduce memory footprint of seaice mutldim advection tapes, |
2793 |
|
by using a 2D tape independent of the generic_advdiff ones, |
2794 |
|
and setting GAD_AREA=1 etc. rather than GAD_AREA=101 etc. |
2795 |
|
|
2796 |
|
checkpoint62q (2010/12/29) |
2797 |
|
o model/src: |
2798 |
|
- check horizontal grid-spacing for unset or zero/negative values. |
2799 |
|
- change AD test hs94.1x64x5 to be truly a 2-D set-up. |
2800 |
|
o pkg/flt: |
2801 |
|
- use (recent) mdsio S/R MDS_READVEC_LOC instead of local FLT_MDSREADVECTOR |
2802 |
|
- precision of input and output files set according to readBinaryPrec |
2803 |
|
and writeBinaryPrec (previously always 64.b), pickup remains at 64 bits. |
2804 |
|
- initial float position from tiled file was not converted to index space |
2805 |
|
(looks like a bug): fixed to make it similar to initial pos. global file. |
2806 |
|
o global_ocean.cs32x15: |
2807 |
|
change SIZE.h of AD set-up to get same tiling as with MPI. |
2808 |
|
Update output_adm, output_adm.thsice (pass@14) & output_adm.seaice (fail@11) |
2809 |
|
o model/src: |
2810 |
|
add flag to control printing of domain fields (bathymetry, hFac ...) in |
2811 |
|
ini_mask_etc (call to plot_fieds_xy*). |
2812 |
|
o pkg/thsice: |
2813 |
|
if useEXF, some forcing fields are not valid in overlap: fixed by computing |
2814 |
|
over the interior only + apply EXCH at the end (like with SEAICE advection). |
2815 |
|
o pkg/mdsio: |
2816 |
|
- add 2 arguments to S/R MDS_PASS_R4/8toRL/S for overlap size of buffer |
2817 |
|
to copy to/from, so that it can be used to replace MDS_PASS_WH_R8toRL/RS. |
2818 |
|
- change barrier call for safe multi-threads access to 3-D shared buffer. |
2819 |
|
- MDS_READ/WRITEVEC_LOC use buffers from MDSIO_BUFF_3D.h (instead of local ones) |
2820 |
|
- replace call to MDS_PASS_WH_R4/8toRL with call to MDS_PASS_R4/8toRL and |
2821 |
|
remove the 4 S/R MDS_PASS_WH_R4/8toRL/S. |
2822 |
|
o pkg/flt: |
2823 |
|
- add fourth-order Runge-Kutta integration |
2824 |
|
- add basic exch2 support (only 1 facet supported so far!) |
2825 |
|
o pkg/mdsio+rw: |
2826 |
|
new S/R to read local (or tile independent) vector (read counterpart of |
2827 |
|
mds_writevec_loc, and front-end write_glvec_rl/rs). |
2828 |
|
o global_ocean.cs32x15: additional input_ad.seaice experiment |
2829 |
|
that uses pkg/seaice rather than pkg/thsice. |
2830 |
|
(using multidim advection for seaice) |
2831 |
|
o towards more F95 syntax for array specification in namelist: |
2832 |
|
- change "data.diagnostics" (data.ptracers was changed before checkpoint62p) |
2833 |
|
of all verification experiments. |
2834 |
|
e.g.: line: fields(1,3)='ETAN ','ETANSQ ', |
2835 |
|
was changed to: fields(1:2,3)='ETAN ','ETANSQ ', |
2836 |
|
- finish adding "-DNML_EXTENDED_F77" to DEFINES list in pgf77 and g77 optfiles |
2837 |
|
o global_ocean.cs32x15: additional input.seaice experiment |
2838 |
|
that uses pkg/seaice rather than pkg/thsice. |
2839 |
|
|
2840 |
|
checkpoint62p (2010/12/17) |
2841 |
|
o pkg/thsice: rename (ad tape index) iicekey as ticekey, and move it |
2842 |
|
to THSICE_SIZE.h to avoid conflict with pkg/seaice. |
2843 |
|
o pkg/seaice: add seaice_diffusion.f seaice_map_thsice.f to adjoint. |
2844 |
|
allow for use of multim. advection in seaice adjoint. |
2845 |
|
o pkg/seaice: add diagnostics for snow precipitation and sublimation flux |
2846 |
|
- first attempt to close budgets by taking into account the freshwater |
2847 |
|
flux implied by the sublimation of snow and ice. So far only the |
2848 |
|
volume budget is closed, turn on with soon-to-be-retired-again CPP-Flag |
2849 |
|
SEAICE_ADD_SUBLIMATION_TO_FWBUDGET |
2850 |
|
o eesupp/src: |
2851 |
|
new S/R with new option (NML_EXTENDED_F77) to change array specification |
2852 |
|
from F95 standard to commonly accepted extended F77 form. |
2853 |
|
This would allow to use F95 syntax in namelist (needed with gfortran 4.4.5) |
2854 |
|
and to revert back to the original syntax (with -DNML_EXTENDED_F77) |
2855 |
|
for less tolerant f77 compiler (e.g., pgf77, g77). |
2856 |
|
o globalFiles: |
2857 |
|
commented out in parameter file "data" since it's not safe with MPI |
2858 |
|
(e.g., wrong on aces); keep it if useSingleCpuIO=T (but not doing much |
2859 |
|
in this case); no longer commented out in restart test (tst_2+2). |
2860 |
|
o add adTapeDir to specify a special directory where adjoint tapes are |
2861 |
|
written/read (adread_adwrite.F). adTapeDir is specified in data/PARM05 |
2862 |
|
and cannot be used together with mdsioLocalDir. |
2863 |
|
o nesting pkgs: |
2864 |
|
- packages_init_variables : put call to OBCS_INIT_VARIABLES in last position |
2865 |
|
- update Gianmaria's Nesting pkgs (from Contrib/nesting_sannino) |
2866 |
|
- add parameter files + utils dir + output from short run on beagle. |
2867 |
|
o pkg/seaice: |
2868 |
|
fix seaice_growth.F store directives; update results of exp. lab_sea.ad |
2869 |
|
o pkg/seaice: explicitly store tsurfloc in seaice_solve4temp.F to avoid |
2870 |
|
unnecessary copying in adjoint code, requires new parameter NMAX_ITER |
2871 |
|
|
2872 |
|
checkpoint62o (2010/11/25) |
2873 |
|
o pkg/exf: |
2874 |
|
- change CPP option EXF_VERBOSE to run-time logical param exf_verbose. |
2875 |
|
o pkg/seaice: |
2876 |
|
- seaice_ocean_stress: split a loop for better vectorization of the |
2877 |
|
adjoint code |
2878 |
|
- seaice_growth.F: fix bug in conservation of freshwater connected to |
2879 |
|
capping of heff, put contribution into d_HEFFbyNEG |
2880 |
|
- replace irritating parameters SEAICE_latentWater/Ice and SEAICE_sensHeat |
2881 |
|
by something more sensible (parameters that are what their name implies) |
2882 |
|
- change some defaults, so that by default exf-parameters are used for |
2883 |
|
things like rhoAir, cpAir,latent/sensible heat parameters, in order |
2884 |
|
to reproduce the old results, many data.seaice now contain funny values |
2885 |
|
for cpAir and latent heat of sublimation |
2886 |
|
o packages_readparms.F: move exf_readparms up in line so that |
2887 |
|
exf-parameters are visible for other packages (e.g. seaice) |
2888 |
|
o debugMode & debugLevel=2: |
2889 |
|
- differentiate between debugMode & debugLevel=2: |
2890 |
|
debugMode: controls printing of debug messages (sequence of S/R calls). |
2891 |
|
debugLevel: controls printing of algorithm intermediate results and stats. |
2892 |
|
- remove "if debugLevel=2 => debugMode" but keep "debugMode => debugLevel=2"; |
2893 |
|
=> allows to print debug-stats without all sequence of call messages. |
2894 |
|
- switch control of debug print from debugLevel to debugMode in many S/R. |
2895 |
|
o pkg/obcs (obcs-sponge): |
2896 |
|
fix bug that was introduced on Oct 25 (in dynamics.F v1.151): put back the |
2897 |
|
call to OBCS_PRESCRIBE_EXCHANGES (need to exch gU,gV when using obcs-sponge) |
2898 |
|
o pkg/generic_advdiff: |
2899 |
|
- record overlap minimum size for each advection scheme; |
2900 |
|
- refine criteria on overlap minimum size; |
2901 |
|
- check and stop (in gad_check) if overlap size is too small. |
2902 |
|
o pkg/obcs: |
2903 |
|
- with ptracers: remove multiple calls to obcs_apply_ptracer (only done |
2904 |
|
once, in ptracers_implicit.F) |
2905 |
|
- with seaice: remove test on empty file name in obcs_apply_seaice (always |
2906 |
|
apply OB values when tile has OB) |
2907 |
|
o model/src, coriolis setting: |
2908 |
|
- integer parameter "selectCoriMap" (=0,1,2) replaces 3 logical |
2909 |
|
useConstantF, useBetaPlaneF, useSphereF ; can now read coriolis from |
2910 |
|
files (selectCoriMap=3) with any grid. |
2911 |
|
- add parameter "fPrime" for constant second Coriolis coeff (default=0). |
2912 |
|
o pkg/seaice/seaice_growth.F: |
2913 |
|
a few cosmetic changes that reduce the number of lines of code |
2914 |
|
o pkg/obcs: add boundary conditions following Stevens (1990) |
2915 |
|
- the code follows old MOM/NAOSIM code |
2916 |
|
- so far it is only implemented for the eastern and western boundaries |
2917 |
|
and NOT for pTracers |
2918 |
|
o pkg/rbcs: |
2919 |
|
- replace rbcsInIter by rbcsForcingOffset, the time in seconds at the |
2920 |
|
beginning of the first rbcs forcing period. |
2921 |
|
- add option rbcsSingleTimeFiles that makes rbcs read forcing data like the |
2922 |
|
offline package, i.e., one file per time, labeled by iteration number; |
2923 |
|
deltaTrbcs sets the timestep with which the data was generated; |
2924 |
|
rbcsIter0 is the forcing iteration corresponding to rbcsForcingOffset. |
2925 |
|
- rbcsForcingCycle=0 makes forcing non-cyclic. |
2926 |
|
- make arithmetic safe for negative times and odd forcing periods. |
2927 |
|
|
2928 |
|
checkpoint62n (2010/11/09) |
2929 |
|
o pkg/seaice: |
2930 |
|
fix masking in free-drift S/R ; update results of exp. lab_sea.fd |
2931 |
|
o pkg/obcs: |
2932 |
|
New S/R to copy tracer value from the OB location to narrow band region |
2933 |
|
(width = same as overlap) beyond the OB: preserve OB value (needed for |
2934 |
|
high-order scheme) which were overwritten by EXCH call if in overlap |
2935 |
|
region. Applied to theta, salt, ptracer and advected seaice variables. |
2936 |
|
With seaice: use maskInC in similar way as in gad_advection.F, |
2937 |
|
in seaice_advection.F and advect.F. |
2938 |
|
Update output of experiment seaice_obcs and change exp4 to test OBCS with |
2939 |
|
4th order Adv.Scheme. for pasive salt and ptracer. |
2940 |
|
o tools/genmake2: |
2941 |
|
- when looking for an optfile (not specified), only search for Fortran compiler |
2942 |
|
(remove sym-link test + setting of CPP + makedepend check + C-compiler check) |
2943 |
|
- in get_fortran_c_namemangling: use "$CC $CFLAG" to compile C test programm |
2944 |
|
(instead of "$MAKE genmake_test.o" since an existing Makefile can be wrong) |
2945 |
|
- set default for CPP to "cpp -traditional -P" (was the case without specifying |
2946 |
|
an optfile, but otherwise default was just "cpp". |
2947 |
|
- comment out PLATFORM=$p_PLATFORM (no idea where p_PLATFORM comes from) |
2948 |
|
- when "CC" is not set in the optfile, look for possible C compiler |
2949 |
|
(instead of just setting CC=cc) |
2950 |
|
- put back version v.169 modif (from 2008/02/15), was dropped in v.173 changes: |
2951 |
|
=> add a ".F" to ".o" rule for source files with no "#include" (such as |
2952 |
|
port_rand.F); otherwise, default ignores FOPTIM and just uses FFLAGS. |
2953 |
|
- move gfortran before g77 in list of possible Fortran compiler (consistent |
2954 |
|
with reference compiler switch from g77 to gfortran) |
2955 |
|
o pkg/seaice: |
2956 |
|
o remove SEAICE_OLD_AND_BAD_DISCRETIZATION-code, add a test to |
2957 |
|
seaice_check that stops the model, when the CPP flag is used. |
2958 |
|
o seaice_growth.F: make capping of ice volume conserving by returning the |
2959 |
|
capped ice as freshwater to EmPmR. This does not change the verification |
2960 |
|
experiments but will change runs where the capping is acutally active |
2961 |
|
o change reference platform+compiler from faulks+g77 to baudelaire+gfortran |
2962 |
|
(except the 2 fizhi test exp.); update output of exp.: bottom_ctrl_5x5, |
2963 |
|
global_ocean.cs32x15 (icedyn, thsice, AD thsice), global_ocean_ebm (AD), |
2964 |
|
lab_sea (fd, hb87, salt_plume), MLAdjust (3/5) and vermix (dd) |
2965 |
|
o tools/genmake2: |
2966 |
|
- merge genmake_warnings & genmake_errors into 1 log file: "genmake.log") |
2967 |
|
- change DUMPSTATE default to false (can use "-ds" option to switch it to T) |
2968 |
|
- clean previous genmake log files before anything else. |
2969 |
|
- change Makefile to remove testreport log files (*.tr_log) and genmake log |
2970 |
|
files only with "CLEAN" target (instead of "Clean"); |
2971 |
|
o pkg/generic_advdiff: |
2972 |
|
Change OBCS in multiDim advection (gad_advection.F): |
2973 |
|
Use maskInC to prevent intermediate update of tracer-field in OB regions, |
2974 |
|
thus keeping current-time-step OB values; and remove the call to OBCS_APPLY |
2975 |
|
which were applying future time-step OB values. |
2976 |
|
This way, all explicit calculations use current-time-step OB values |
2977 |
|
(simpler and more consistent). |
2978 |
|
Affects results when set-up uses time-varying OBC and multi-dim advection; |
2979 |
|
update output of experiment seaice_obcs. |
2980 |
|
o pkg/seaice: |
2981 |
|
move OPTIONS (formerly locally defined) to SEAICE_OPTIONS.h: |
2982 |
|
this includes SEAICE_GROWTH_LEGACY (+ SEAICE_DO_OPEN_WATER_GROWTH & |
2983 |
|
SEAICE_OCN_MELT_ACT_ON_AREA ) and SEAICE_SOLVE4TEMP_LEGACY. |
2984 |
|
Default (pkg/seaice/SEAICE_OPTIONS.h) is to define SEAICE_SOLVE4TEMP_LEGACY |
2985 |
|
but leave SEAICE_GROWTH_LEGACY undef ; For now, keep verification exp |
2986 |
|
unchanged (SEAICE_GROWTH_LEGACY defined in */code*/SEAICE_OPTIONS.h) |
2987 |
|
o pkg aim (2010/10/26): |
2988 |
|
- Introduce ALLOW_INSOLATION, moving toward a more general incoming solar radiation |
2989 |
|
formulation with obliquity, eccentricity, ... as run-time parameters, |
2990 |
|
- Introduce diagnostics for top-of-the-atmaophere incoming solar radiation and |
2991 |
|
upward shortwave radition at the surface (all-sky and clear-sky). |
2992 |
|
o pkg/obcs: |
2993 |
|
- writing sections with globalFiles=T does not work: switch to tiled-files |
2994 |
|
when writing sections for OBCS (change pkg/rw/write_rec.F accordingly). |
2995 |
|
- fix index bug (OB_Ie -> OB_Iw_) in obcs_apply_uvice.F |
2996 |
|
- apply OBCS_SEAICE_COMPUTE_UVICE to both uice and vice at all obcs |
2997 |
|
|
2998 |
|
checkpoint62m (2010/10/21) |
2999 |
|
o pkg/seaice: vectorize seaice_solve4temp.F |
3000 |
|
- move iterations loops outside of i/j-loops |
3001 |
|
- requires 2D arrays for TB and effConduct |
3002 |
|
- add 2D iceOrNot to replace HICE_ACTUAL.GT.0, as HICE_ACTUAL is |
3003 |
|
modified in this routine |
3004 |
|
- a little bit of clean up, adjusting indentation, etc. |
3005 |
|
- replaced a few TEN**a by exp(a*log(10.)) in new code for better |
3006 |
|
performance and '**TWO' by '**2' (because TWO is a float), |
3007 |
|
replaced ONE, ZERO |
3008 |
|
o eesupp/src: |
3009 |
|
fix flow dir for exch1_z_RX_cube, exch1_uv_RX_cube & exch1_bg_RX_cube |
3010 |
|
o pkg/seaice/seaice_growth.F |
3011 |
|
Revision 1.89 of seaice_growth.F completes the overall october 2010 revision and |
3012 |
|
merging process. The merged routine has two branches, and one activates the 'evolution' |
3013 |
|
branch by setting SEAICE_GROWTH_LEGACY to undef (at the top of the routine for now). |
3014 |
|
In summary, here is what the '10/10 revision' did consist of |
3015 |
|
part 1: seaice_growth.F revisions 1.71 to 1.75 |
3016 |
|
- Preliminary seaice_growth.F clean-up, keeping test results strictly unchanged. |
3017 |
|
The emphasis here was on improving readability (e.g. by trying to use meaningful |
3018 |
|
variable names) and modularity (e.g. by adding arrays to store heff etc. updates). |
3019 |
|
part 1.5: |
3020 |
|
- revising the lab_sea experiment to make it a more useful (i.e. stable |
3021 |
|
and representative of an actual model run). This was done by generating a |
3022 |
|
(winter) pickup to start from, switching back the main experiment dynamic |
3023 |
|
solver from evp to lsr, having one of the experiments use the free drift solution. |
3024 |
|
part 2: seaice_growth.F revisions 1.76 to 1.85 |
3025 |
|
- Sorting out hard-coded constants that prevented heat and fresh water conservation. |
3026 |
|
- Sorting out the various fields units and sign (set early on and reset at the end) |
3027 |
|
to avoid numerous scalings/re-scalings. By v1.85 the basic unit for ice, heat and |
3028 |
|
fresh water stock is 'effective ice meters', and >0 implies more ice/snow. |
3029 |
|
- Using tendency terms arrays (d_HEFF* etc.) to alleviate remaining code locks, |
3030 |
|
and simplifying logical expressions to further improve readibility. |
3031 |
|
part 3: seaice_growth.F revisions 1.86 to 1.89 |
3032 |
|
- Re-organize the blocks of code more logically. |
3033 |
|
- Merging the '_if.F' pieces that add something new. |
3034 |
|
o pkg/thsice: |
3035 |
|
- vectorize thsice_solve4temp and thsice_get_exf. |
3036 |
|
Problem: thsice_solve4temp has an unvectorizable statement that |
3037 |
|
might also be problematic for TAF |
3038 |
|
- thsice_get_exf: add the ALLOW_BULK_LARGEYEAGER04 CPP-flag. This |
3039 |
|
does not change the verifcation experiment, but will change all |
3040 |
|
experiments that have this flag undefined (not tested in verification); |
3041 |
|
a little reorganization to save a few 2D fields and recomputations |
3042 |
|
- 1st step of revisiting thsice adjoint (major recomp. sorted out) |
3043 |
|
- 2nd step: fix some store dirs |
3044 |
|
o seems to work somewhat, i.e. using ifort but not g77 |
3045 |
|
o likely cause are incomplete init. or recomputation |
3046 |
|
o start verification/global_ocean.cs32x15/input_ad.thsice |
3047 |
|
o pkg/obcs: add support for exch2 |
3048 |
|
- the position of the boundary and prescribed values are specified using |
3049 |
|
a global domain with exch2 facets stacked |
3050 |
|
- in x for N,S boundaries (like W2_mapIO=-1) |
3051 |
|
- in y for E,W boundaries (so E,W boundaries do not overlap) |
3052 |
|
o pkg/mdsio: add support for writing global sections with exch2 |
3053 |
|
file layout is as for obcs described above: |
3054 |
|
- for x-z sections, facets are stacked in x (like W2_mapIO=-1) |
3055 |
|
- for y-z sections, facets are stacked in y |
3056 |
|
o pkg/thsice: |
3057 |
|
- change a few routines for better vectorization: thsice_albedo.F, |
3058 |
|
thsice_step_temp.F, and in thsice_calc_thickn.F. Results are |
3059 |
|
not affected, but in particular the latter routine has changed |
3060 |
|
dramatically (not necessarily easier to read now). |
3061 |
|
- re-arrange calculation in THSICE_SOLVE4TEMP: move outside of i,j loops |
3062 |
|
iteration loop and call to S/R THSICE_GET_BULKF & THSICE_GET_EXF. |
3063 |
|
o verification/lab_sea: |
3064 |
|
- overhaul of the forward model experiments. The main motivation |
3065 |
|
for this revision is that lab_sea has proven quite fragile (when |
3066 |
|
changing the sea-ice code, and switching platforms) to a point |
3067 |
|
when failures were very hard to attribute to specific code problems. |
3068 |
|
- the suspected reason for this fragility is noise amplification by evp so, |
3069 |
|
to start with, we decided to replace evp with lsr in the main experiment. |
3070 |
|
- the input.lsr experiment thus became obsolete and was removed. |
3071 |
|
- it was replaced with the input.fd experiment that uses an |
3072 |
|
analytical "free drift" solution as the ice velocity field. |
3073 |
|
- Taken together, input (lsr), input.fd (free drift) and input.hb87 (evp) |
3074 |
|
will hopefully allow us to discriminate problems due to dynamic solvers |
3075 |
|
from problems due to the thermodynamic code. input.salt_plume (lsr) allows |
3076 |
|
us to test additional options, along with the salt plume package. |
3077 |
|
- Finally a pickup was generated (at the end of a one year run) to |
3078 |
|
make the tests more representative of an actual model run. Previously |
3079 |
|
the tests starting point was a 1m thickness of ice everywhere. |
3080 |
|
o pkg/seaice: |
3081 |
|
- introducing S\R seaice_freedrift.F that compute the |
3082 |
|
analytical solution to an approximate ice momentum |
3083 |
|
equation (i.e. the simple stress/coriolis balance). |
3084 |
|
- define SEAICE_ALLOW_FREEDRIFT to trigger the computation |
3085 |
|
of the free drift velocity field, and enable its use. |
3086 |
|
To actually use the free drift solution as the model ice |
3087 |
|
velocity field set SEAICEuseFREEDRIFT to .TRUE. in data.seaice. |
3088 |
|
o move "useOASIS" from PARAMS.h to EEPARAMS.h and read it from "eedata" |
3089 |
|
|
3090 |
|
checkpoint62l (2010/10/04) |
3091 |
|
o pkg/seaice: |
3092 |
|
-fix the USE_ORIGINAL_SBI version (for variable freezing point); |
3093 |
|
-use "celsius2K" in SEAICE_VARIABLE_FREEZING_POINT and in new |
3094 |
|
version (with USE_ORIGINAL_SBI undef); |
3095 |
|
o add hooks for new packages OASIS, the package will follow |
3096 |
|
(hooks exclude the seaice pkg for now) |
3097 |
|
o pkg/autodiff: ALLOW_AUTODIFF_WHTAPEIO |
3098 |
|
Option to use mdsio_read_whalos.F/mdsio_write_whalos.F, |
3099 |
|
rather than mdsio_readvector.F/mdsio_writevector.F, within |
3100 |
|
adread_adwrite.F to read/write adjoint-related tapes to disk. |
3101 |
|
o eesupp and pkg/mdsio: ALLOW_WHIO |
3102 |
|
Option to write/read 2D fields to files including tiles halos. |
3103 |
|
The main purpose is for adjoint related "tape I/O". |
3104 |
|
The secondary purpose is for debugging phases. |
3105 |
|
A word on those rather specifically intended purposes. |
3106 |
|
The code was meant to be stripped down to the bare minimum. |
3107 |
|
Typically, there is a unique and basic mapping to the global |
3108 |
|
buffer (tile by tile, then proc by proc, then level by level), and |
3109 |
|
byteswaps and meta-files are omitted. Indeed the (*_WH*) code is not |
3110 |
|
meant to generate user friendly outputs of various shapes and forms. |
3111 |
|
Rather it is intended, for the knowledgeabale developers, |
3112 |
|
to be largely independent of the many mdsio options, to allow |
3113 |
|
outputs of tiles+halos in debugging phases and in adjoint runs, |
3114 |
|
and to allow some flexibility in tuning (adoint) I/O depending on each |
3115 |
|
file system behavior. With regard to tuning, most of the potential knobs |
3116 |
|
(to leave files open, to allocate the I/O indep. of usesinglecpuio, |
3117 |
|
to specify directories, to specify the typical size of I/O calls, etc.) |
3118 |
|
are not yet included, and will be added if they prove useful. |
3119 |
|
o pkg/seaice: |
3120 |
|
fix uninitialised arrays in USE_ORIGINAL_SBI version of seaice_solve4temp.F |
3121 |
|
o pkg/seaice: |
3122 |
|
new S/R seaice_solve4temp.F: this is the merged version of Ian Fenty |
3123 |
|
code (seaice_budget_ice_if.F) which enable to recover old standard |
3124 |
|
code (seaice_budget_ice.F) when option USE_ORIGINAL_SBI is defined. |
3125 |
|
temporary: add "#define USE_ORIGINAL_SBI" at the top of seaice_solve4temp.F. |
3126 |
|
o model/src (rStar): |
3127 |
|
use simple average (not area weighted) of rStarFac at U,V point when using |
3128 |
|
vectorInvariant and selectKEscheme=1,3 (consistent with mom. vertical advection) |
3129 |
|
update output of exp. fizhi-cs-32x32x40 and fizhi-cs-aqualev20. |
3130 |
|
|
3131 |
|
checkpoint62k (2010/09/17) |
3132 |
|
o adjoint |
3133 |
|
* changed verification/global_ocean.cs32x15 ; adjoint now tests |
3134 |
|
Adams-Bashforth 3 + NLFS + RSTAR |
3135 |
|
* some more modifs required for ECCO-GODAE v4 |
3136 |
|
o pkg/seaice |
3137 |
|
add SEAICE_AGE_VOL option to use volume instead of area for |
3138 |
|
integrating SEAICE_AGE |
3139 |
|
o model/src: |
3140 |
|
first check-in of sigma & hybrid-sigma coordinate code ; also includes |
3141 |
|
non-linear free-surface parts ; but pressure-gradient not yet coded. |
3142 |
|
o pkg/ptracers: |
3143 |
|
option for ptracer to convert Salt Relax into additional EmP. |
3144 |
|
tested in exp. global_ocean.90x40x15.dwnslp (update output) |
3145 |
|
|
3146 |
|
checkpoint62j (2010/08/25) |
3147 |
|
o pkg/ggl90: |
3148 |
|
other minor changes: remove 3-D temp array gTKE (+ add argument myIter) |
3149 |
|
o pkg/dic: car_flux.F, phos_flux.F |
3150 |
|
- reduce number of exp-calls in order to improve performance |
3151 |
|
- clean up a little (replace fields by their macros, etc., fix |
3152 |
|
typo in CPP-flag) |
3153 |
|
o pkg/ggl90: minor changes |
3154 |
|
- GGL90diffKrS was removed --> always use GGL90diffKr |
3155 |
|
- GGL90viscAr was removed --> replaced with GGL90viscArU, GGL90viscArV |
3156 |
|
- hack of mxlMaxFlag=2 --> ensure mixing between first and second level |
3157 |
|
(commented out for now) |
3158 |
|
- change in max/min operations to ensure that smoothing is ok |
3159 |
|
- smoothing of GGL90viscAr was moved to ggl90_calc.F (as done for GGL90diffKr) |
3160 |
|
- always use diffKrNrT as background profile (i.e. never use diffKr field) |
3161 |
|
o pkg/cfc: bug fix, AREA(i,j,1,bi,bj) -> AREA(i,j,bi,bj) |
3162 |
|
o pkg/dic: |
3163 |
|
- model/src/impldiff.F: if TARGET_NEC_SX, extend loop ranges for better |
3164 |
|
vectorization |
3165 |
|
- small bug fix in insol for the unlikely case of a cartesian grid |
3166 |
|
- towards vectorizing the dic package: bio_export.F, car_flux.F, phos_flux.F |
3167 |
|
+ now vectorize, which also removes adjoint recomputations; |
3168 |
|
+ replace integer maksp1 by _RL maskp1 |
3169 |
|
+ replace a**x by exp(x*log(a)) in phos_flux.F for speed |
3170 |
|
|
3171 |
|
checkpoint62i (2010/07/21) |
3172 |
|
o pkg/flt: |
3173 |
|
- with OBCS: stop floats which enter the OB region |
3174 |
|
o model/src: |
3175 |
|
- use tempVertAdvScheme & saltVertAdvScheme (instead of horizontal ones) |
3176 |
|
for implicit vertical advection. |
3177 |
|
o pkg/seaice: |
3178 |
|
- account for melting in seaice age evolution. |
3179 |
|
- remove double counting of seaice ridging effect on seaice age. |
3180 |
|
|
3181 |
|
checkpoint62h (2010/06/18) |
3182 |
|
o pkg/exch2: |
3183 |
|
- remove exch2_*xy_rx files: call was replaced with exch2_*3d_rx(myNz=1). |
3184 |
|
o tools/genmake2 |
3185 |
|
- remove "-pdefault" option: redundant with the use of "packages.conf"; |
3186 |
|
- remove file pkg/pkg_default : set the default as a pkg group |
3187 |
|
("default_pkg_list") defined in pkg/pkg_groups; |
3188 |
|
- fix for case pkg/pkg_depend is missing (was hanging before); |
3189 |
|
- add option "-pgroups" to specify a different pkg_groups than the default. |
3190 |
|
o verification/adjustment.cs-32x32x1: |
3191 |
|
add a "minimal" set-up test (code_min & input_min) which only compiles |
3192 |
|
eesupp/src and the 2 pkgs (exch2 & debug) which don't need model/src & inc. |
3193 |
|
o tools/genmake2 |
3194 |
|
- extend pkg_depend rules to model & eesupp (e.g., if model depend on [pkg])) |
3195 |
|
- fix details of checking for mnc & profile pkg when NetCDF is unavailable. |
3196 |
|
o pkg/exf: merge exf_bulk_largeyeager04 into exf_bulkformulae because these |
3197 |
|
files are nearly the same anyway. |
3198 |
|
Step 1: make exf_bulkformulae look like exf_bulk_largeyeager04: |
3199 |
|
- redefinition of tau(i,i) (by a factor of ustar) |
3200 |
|
- 1./exf(Const/T) -> exf(-Const/T) (big change in the results) |
3201 |
|
- replace rhonil by rhoConstFresh in computation of evap (bug fix) |
3202 |
|
- replace u/vstress=tau*rd*ws*cw by tau*rd*u/vwind (changes results) |
3203 |
|
- replace |
3204 |
|
rd(i,j)= rdn(i,j)/(exf_one - rdn(i,j)/karman*psimh ) |
3205 |
|
shn = sh(i,j,bi,bj)*rd(i,j)/rdn(i,j) |
3206 |
|
by |
3207 |
|
shn = sh(i,j,bi,bj)/(exf_one - rdn(i,j)/karman*psimh ) |
3208 |
|
(changes results) |
3209 |
|
-> exf_bulkformulae v1.22, |
3210 |
|
update verification experiments lab_sea, offline_exf_seaice, seaice_obcs |
3211 |
|
(lab_sea: output.hb87.txt 1.11, output.lsr.txt 1.25, output.salt_plume.txt 1.13, |
3212 |
|
output.txt 1.63 |
3213 |
|
offline_exf_seaice: output.seaicetd.txt 1.7 |
3214 |
|
seaice_obcs: output.txt 1.10) |
3215 |
|
Step 2: do the actual merge and remove exf_bulk_largeyeager04.F |
3216 |
|
-> exf_bulkformulae v1.23, |
3217 |
|
unfortunately requires updating lab_sea.salt_plume (6 matching digits), |
3218 |
|
and global_ocean.cs32x15.icedyn (only 11 matching digits) |
3219 |
|
Also update output_adm of exp. lab_sea (all 4) and offline_exf_seaice. |
3220 |
|
o adjoint of exch-1: |
3221 |
|
- pass high-level EXCH S/R through TAF (eesupp/src/exch_ad_diff.list) |
3222 |
|
(note: was already like this when using EXCH-2) and remove flow dir |
3223 |
|
and hand-written AD version of high-level EXCH S/R (pkg/autodiff); |
3224 |
|
- provide flow-dir for low-level exch1 S/R (eesupp/src/exch1_ad.flow); |
3225 |
|
- update pkg/exch2 diff list. |
3226 |
|
|
3227 |
|
checkpoint62g (2010/05/19) |
3228 |
|
o eesupp/src (exch-1): |
3229 |
|
- split exch_rx.F into Forward S/R (exch1_rx.F) and Adjoint S/R (exch1_rx_ad.F) |
3230 |
|
and remove argument "simulationMode"; same thing for all exch_*rx_cube.F |
3231 |
|
(renamed to exch1_*rx_cube.F). |
3232 |
|
- change accordingly exch_*_rx.template and AD version in pkg/autodiff |
3233 |
|
to call new exch1 S/R ; update Makefile and .cvsignore. |
3234 |
|
- replace call to exch2_xy_rx S/R with exch2_*3d_rx(myNz=1) (will remove |
3235 |
|
exch2_xy_rx later) |
3236 |
|
Note: after updating your code, need to run "make clean" in eesupp/src |
3237 |
|
o test experiment bottom_ctrl_5x5: |
3238 |
|
new output_adm.txt with fewer grdchk & less monitor output. |
3239 |
|
o model/src: |
3240 |
|
remove the call to ini_cori in initialise_varia.F (just keep the usual one |
3241 |
|
in initialise_fixed.F). More consistent with coriolis & horizontal grid |
3242 |
|
beeing treated in the same way (ini_grid is not called a 2nd time). |
3243 |
|
o pkg/exf: |
3244 |
|
- rewrite exf_bulk_largeyeager04.F for better vectorization, changes |
3245 |
|
global_ocean.cs32x15/input.icedyn (11 digits of agreement), updated |
3246 |
|
- fix adjoint (used worked for ALLOW_ATM_WIND defined, works for this now) |
3247 |
|
- cosmetic changes to exf_bulkformulae.F to make it look more like |
3248 |
|
exf_bulk_largeyeager04.F |
3249 |
|
o eesupp/src (exch-1): |
3250 |
|
- Fix AD EXCH code for 2-D domain special cases (Nx=1 or Ny=1). |
3251 |
|
- Separate buffer filling and MPI sending: allow EXCH-1 to work for local |
3252 |
|
array (non-shared) when using MPI+MTH. Also reduces number of BARRIER |
3253 |
|
(even without using MPI). |
3254 |
|
- Message mode: move RecvAck setting (indicator of buffer being ready) |
3255 |
|
from send_put to recv_get S/R (was useless before, but not sure if |
3256 |
|
it's much more useful now); |
3257 |
|
- Switch the order of sync: MPI-proc 1rst and then threads; |
3258 |
|
- take out spin-waiting code (#undef EXCH_USE_SPINNING), use BARRIER instead. |
3259 |
|
- fix AD code for communication mode ='get' (but not used). |
3260 |
|
o model/src: |
3261 |
|
initialise dPhiHydX,dPhiHydY inside calc_grad_phi_hyd.F (so that TAF does |
3262 |
|
not drop it in S/R mddynamics, producing NaN in hs94.1x64x5 AD-test exp). |
3263 |
|
o utils/matlab/rdmnc.m: adapt to be able to use the generic matlab netcdf API |
3264 |
|
o pkg/ctrl: require a specific set of control variables and exf-flags for |
3265 |
|
adjoint of seaice (stop in ctrl_check.F if conditions are not satisfied) |
3266 |
|
o model/src: |
3267 |
|
a) 1rst version of a new driver S/R to turn-off output freq and flags after the |
3268 |
|
1rst forward sweep, to avoid over-writing output files during recomputations |
3269 |
|
recomputations (& grdchk); called from cost_final.F (& ctrl_init_ctrlvar.F ?) |
3270 |
|
b) 2nd version: |
3271 |
|
- add specific pkg S/R for seaice & ptracers (called from S/R TURNOFF_MODEL_IO); |
3272 |
|
- switch-off more output flags (exf_monFreq, chkPtFreq, dumpInitAndLast, |
3273 |
|
writePickupAtEnd) + seaice & ptracers output; |
3274 |
|
- do not switch off MNC flags (otherwise, won't get admonitor netcdf file) |
3275 |
|
o model/src: |
3276 |
|
- new S/R rotate_uv2en_rl (..._rs) that rotates vector fields. |
3277 |
|
o pkg/exch2: |
3278 |
|
- remove "simulationMode" from arg. list of S/R EXCH2_RX1,2_CUBE ; |
3279 |
|
- add argument "signOption" to EXCH2_RX1_CUBE (will be needed for SM exch). |
3280 |
|
o pkg/autodiff & exch2: |
3281 |
|
process exch_uv_agrid_3d_rx.f & exch2_uv_agrid_3d_rx.f through TAF |
3282 |
|
(for now, only if ALLOW_EXCH2 is defined). |
3283 |
|
o pkg/autodiff: |
3284 |
|
- include PACKAGES_CONFIG.h in exch*ad.flow & exch*ad.F |
3285 |
|
(not supposed to be in CPP_OPTIONS.h) to get ALLOW_EXCH2 defined correctly. |
3286 |
|
+ clean-up comments (_RS is not always real*4) |
3287 |
|
- fix bug in ADEXCH_UV_3D_RX (without EXCH2, was calling the forward exch S/R) |
3288 |
|
- add a stop in ADEXCH_UV_AGRID_3D_RX if trying to use it with EXCH2: |
3289 |
|
was calling a forward exch2, which is wrong ; used in SEAICE & EXF pkgs. |
3290 |
|
o testreport (AD-tests): |
3291 |
|
no longer link files from dir "../input" (1rst link files from |
3292 |
|
"../input_ad.[xx]" if secondary test "xx" and then from "../input_ad") |
3293 |
|
|
3294 |
|
checkpoint62f (2010/04/29) |
3295 |
|
o model/src/the_main_loop.F: |
3296 |
|
adjust store directives for seaice evp and multicategory according to |
3297 |
|
pkg/ecco/the_main_loop.F |
3298 |
|
o adjoint: |
3299 |
|
global_sum_ad was incomplete (noted many times by many people ;) |
3300 |
|
nice description by Jean U. as follows: |
3301 |
|
* allreduce(var) in global_sum.F can be interpreted as |
3302 |
|
reduce(sum) followed by broadcast of sum. |
3303 |
|
* The adjoint of that is |
3304 |
|
sum(adjoint) followed by broadcast(summed adjoint value) |
3305 |
|
or in other words, allreduce(sum, adjoint vars) |
3306 |
|
We were missing the sum(adjoint)! |
3307 |
|
Benign, except(!) for "global" scalars appearing in tile loops (bi,bj) |
3308 |
|
(noted by J.M. Campin, e.g., in cost_ssh_mean, variable offset). |
3309 |
|
The fix should produce 16-digit accuracy between |
3310 |
|
single-CPU multi-tile (e.g. nSx=2, nPx=1) and |
3311 |
|
multi-CPU single-tile (e.g. nSx=1, nPx-2) |
3312 |
|
We'll probably change this yet again shortly |
3313 |
|
o eesupp/src: |
3314 |
|
- fix global_sum_r4 (wrong from previous modif in Jun 2009; ever used ?) |
3315 |
|
o pkg/icefront |
3316 |
|
- ALLOW_SUBGLACIAL_RUNOFF option adds capability for time-evolving |
3317 |
|
specification of addmass array based on a 2D field, which is added |
3318 |
|
at bottommost wet level at each horizontal location. |
3319 |
|
o model/src: |
3320 |
|
horizontal grid initialisation (other than curvilinear): add code for Exch2 IO |
3321 |
|
layout; (not always compatible with delX,delY setting; commented out for now). |
3322 |
|
o pkg/exch2: |
3323 |
|
change tile to processor setting (case nSy*nPy > 1): allows default model mapping |
3324 |
|
(myX and myYGlobalLow) to be used for simple (1 facet, no blank tile) config. |
3325 |
|
|
3326 |
|
checkpoint62e (2010/04/15) |
3327 |
|
o pkg/obcs: |
3328 |
|
- fix wrong index in OBCS_SPONGE_V for Eastern-OB (reported by David Hebert). |
3329 |
|
o pkg/dic: |
3330 |
|
-fix bug in fe_chem.F for multi-tile (nSx*nSy > 1) set-up; |
3331 |
|
(note: not presently tested in any forward verification exp.) |
3332 |
|
update tutorial_global_oce_biogeo AD output file. |
3333 |
|
o pkg/exf: |
3334 |
|
- account for the variation of albedo as a function of zenith angle |
3335 |
|
by defining ALLOW_ZENITHANGLE in EXF_OPTIONS.h |
3336 |
|
o build_options: |
3337 |
|
- rename "linux_ia64_ifort+mpi_ice_nas" to "linux_amd64_ifort+mpi_ice_nas" |
3338 |
|
o pkg/dic: |
3339 |
|
change DIC atmos-CO2 box (method 3, dic_int1=3) initialisation & restart: |
3340 |
|
- use binary pickup file for restart; |
3341 |
|
- initialise atmos-CO2 box from dic_pCO2 parameter; |
3342 |
|
- fix multi-threaded. |
3343 |
|
o pkg/rbcs: |
3344 |
|
- clean-up RBCS code: add RBCS_OPTIONS.h file ; fix multi-threaded ; |
3345 |
|
change (+ fix IO calls) type of array RBC_mask from _RL to _RS. |
3346 |
|
- add RBCS to exp4 passive tracer 01 (rbcs was previously untested) |
3347 |
|
and update output.txt |
3348 |
|
o pkg/kpp: |
3349 |
|
- add diagnostics for KPP non-local flux of Temp, Salinity and pTracers; |
3350 |
|
- change diagnostic of KPP non-local term: output average of KPPghat*KPPdiffKzS |
3351 |
|
(= ratio of KPP non-local (salt) flux relative to surface-flux) when |
3352 |
|
using pkg/timeave & pkg/diagnostics (diag 'KPPghatK' replaces 'KPPghat '); |
3353 |
|
- change pkg/offline to read-in average KPPghat*KPPdiffKzS from file |
3354 |
|
KPP_ghatKFile (instead of the average of KPPghat from file KPP_ghatFile). |
3355 |
|
o pkg/offline: |
3356 |
|
fix bug in S/R OFFLINE_FIELDS_LOAD regarding surfaceForcing conversion factor |
3357 |
|
(bug was added in version 1.10 on 2007-08-23). |
3358 |
|
o pkg/offline: |
3359 |
|
- no need to specify periodicExternalForcing, etc ... to use offline pack |
3360 |
|
- offline input files no longer just single prec --> parameter offlineLoadPrec |
3361 |
|
o verification/lab_sea: |
3362 |
|
change AD test to multi-tile setup and update all 4 AD output. |
3363 |
|
NOTE: while cost function values remain very similar, |
3364 |
|
gradients are very different, although gradient checks are self-consistent |
3365 |
|
Should try to get to the bottom of this (cost function summation order?) |
3366 |
|
o pkg/dic: |
3367 |
|
in carbon_chem.F, replace log10 (AUTODIFF) with explicit form to avoid |
3368 |
|
a weakness of TAF that drops part of double precision in log10 derivative. |
3369 |
|
<= changes removed since problem has been fixed in current TAF version 1.9.71 |
3370 |
|
update AD output of exp. tutorial_dic_adjoffline & tutorial_global_oce_biogeo. |
3371 |
|
o pkg/ecco: |
3372 |
|
add missing "_d 0" in cost_readers.F, cost_readtopex.F & cost_readtopexmean.F |
3373 |
|
update all 4 lab_sea AD output. |
3374 |
|
|
3375 |
|
checkpoint62d (2010/03/22) |
3376 |
|
o build_options: |
3377 |
|
remove '-r8' (and '-i4') from linux_*pgf and linux_*ifort optfiles. |
3378 |
|
o remove unbalanced quote (single or double) in commented line of source code |
3379 |
|
(may cause some warning with some preprocessor/makedepend versions). |
3380 |
|
o pkg/seaice: |
3381 |
|
fix seaice_model.F for adjoint (gael) and update AD results of experiments |
3382 |
|
lab_sea (std + evp + noseaicedyn) and offline_exf_seaice. |
3383 |
|
o testreport: |
3384 |
|
add option '-runonly' (short: '-ro') to just do the run part (without make). |
3385 |
|
o eesupp: remove JAM communication code (obsolete). |
3386 |
|
o add option to genmake2 & testreport to switch "_RS" type to "real*4" |
3387 |
|
(if allowed in CPP_EEOPTIONS.h); update default CPP_EEOPTIONS.h and return |
3388 |
|
to default CPP_EEOPTIONS.h for exp. inverted_barometer & solid-body.cs-32x32x1 |
3389 |
|
(update also the output). |
3390 |
|
|
3391 |
|
checkpoint62c (2010/03/02) |
3392 |
|
o tools/build_options : |
3393 |
|
move (some) old optfiles from build_options/ to build_options/unsupported/ |
3394 |
|
o model/src and pkg/exf |
3395 |
|
surface relaxation -- separating data and data.exf options |
3396 |
|
The point is to ensure that we specify the surface relaxation |
3397 |
|
either in data or in data.exf (but not half and half) and to |
3398 |
|
avoid an accidental relaxation to 0 (which happened if a time |
3399 |
|
scale was specified but the file name was left empty) |
3400 |
|
o model/src model/inc and pkg/mom_common |
3401 |
|
ALLOW_3D_VISCAH/ALLOW_3D_VISCA4 => 3D specification of Viscosity |
3402 |
|
=> addition to the viscosity field as computed by others schemes |
3403 |
|
o tools/build_options: |
3404 |
|
- rename "_generic_mpi" -> "+mpi_generic" (like other "+mpi" optfile) |
3405 |
|
but keep the former optfile for few weeks for smooth transition |
3406 |
|
o pkg/ecco |
3407 |
|
- allow user defined cost function contributions |
3408 |
|
CPP: ALLOW_USERCOST_CONTRIBUTION |
3409 |
|
USAGE: compute contributions in cost_usercost_all.F |
3410 |
|
- note: this is identical to what ALLOW_GENCOST_CONTRIBUTION once was. |
3411 |
|
the two options are complementary. |
3412 |
|
o pkg/smooth |
3413 |
|
- migration from contrib to the main repository |
3414 |
|
|
3415 |
|
checkpoint62b (2010/01/26) |
3416 |
|
o pkg/monitor: |
3417 |
|
- change back mon_printstats_rl.F & mon_stats_rl.F and add a stop |
3418 |
|
(in case someone forgot to update customized pieces of code) |
3419 |
|
o nonHydrostatic: |
3420 |
|
- add Non-hydrostatic free-surface form (selectNHfreeSurf=1)(not fully tested); |
3421 |
|
- add a simple 2-D experiment (short_surf_wave) to test it. |
3422 |
|
o pkg/icefront: |
3423 |
|
adding the shell of, and the hooks to, a new package that |
3424 |
|
will model melting and freezing of vertical glacier ice fronts |
3425 |
|
o momentum: |
3426 |
|
add diagnostics of momentum tendency from Hydrostatic pressure gradient |
3427 |
|
(without surf.pressure term: would need a 2nd filling since implicit term). |
3428 |
|
o add 3 "_d 0"s so that fizhi compiles with xlf on iblade, and replace |
3429 |
|
two " &end" by " &" (in fizhi-cs-*) because S/R NML_SET_TERMINATOR |
3430 |
|
cannot deal with the former |
3431 |
|
o cleaning: |
3432 |
|
- remove all (except OpenAD) old TLM output from results_ad dirs. |
3433 |
|
- remove unused S/R (MDSWRITEMETA, DIAGNOSTICS_ADD2LIST, old DFILE IO S/R) |
3434 |
|
- comment out maskH definition (replaced by maskInC) |
3435 |
|
o pkg/monitor: |
3436 |
|
- change mon_printstats_rl.F & mon_stats_rl.F (were similar to mon_writestats_rl |
3437 |
|
& mon_calc_stats_rl) to be the RL equivalent of mon_printstats_rs & mon_stats_rs. |
3438 |
|
|
3439 |
|
checkpoint62a (2010/01/15) |
3440 |
|
o model/src: |
3441 |
|
- bottom pressure diagnostic: correct for r* (when nonlinFreeSurf >= 4) |
3442 |
|
o pkg/diagnostics: |
3443 |
|
- add optional level number diagnostics (i.e., level number to be define |
3444 |
|
explictly with S/R DIAGNOSTICS_SETKLEV) with parser-code(10)="X". |
3445 |
|
- strictly check for valid parser-code(10) ; |
3446 |
|
- check if adding diag to the list from the right place. |
3447 |
|
o pkg/longstep: |
3448 |
|
- change parameters and fix tracer conservation with rstar/nonlinear free surface |
3449 |
|
o diagnostics: |
3450 |
|
- in all pkgs, replace remaining calls to old S/R DIAGNOSTICS_ADD2LIST with newer |
3451 |
|
S/R DIAGNOSTICS_ADDTOLIST ; fix seaice VICE diagnostics. |
3452 |
|
o pkg/diagnostics: |
3453 |
|
- Add option for writing vertical integral (sum of selected levels) of an output |
3454 |
|
field instead of writing output field levels. Activate this option on a per |
3455 |
|
output-file basis, by setting the 2nd character of fileflag to 'I'. |
3456 |
|
- Add field-specific information relative to level integral in 3rd postion |
3457 |
|
of parser diagnostics code (gdiag): " "=cumulate levels, "R"=integrate |
3458 |
|
vertically (x level-thickness x hFac), "r"=same but without hFac. |
3459 |
|
o do_the_model_io: |
3460 |
|
- pass end-of-model-run flag as argument, from forward_step to diagnostics_write: |
3461 |
|
in case useSIGREG, will write (averaged) diagnostics (if dumpAtLast) before |
3462 |
|
writing pickups and stopping. |
3463 |
|
o pkg/diagnostics (for now, only with mdsio): |
3464 |
|
- write time information to meta file (and modify accordingly rdmds.m) : |
3465 |
|
time-averaged diagnostics output: write starting and ending time of the |
3466 |
|
time-averaging interval ; snap-shot diagnostics output remains unchanged; |
3467 |
|
o pkg/timeave: |
3468 |
|
- S/R TIMEAVE_NORMALIZ: change size of cumulated-time array (was previously |
3469 |
|
always Nr), now assumed to be equal to number of levels of averaged field; |
3470 |
|
only used for DIC_COST monthly mean arrays: this fixes dic_aver_final.F |
3471 |
|
o pkg/sbo: |
3472 |
|
- fix ocean bottom pressure global-average & 2-D time-ave output (was |
3473 |
|
neither initialised nor filled). |
3474 |
|
- add starting iteration in suffix of global-average output file |
3475 |
|
(to avoid over-writing the file after a restart) |
3476 |
|
- use standard MDSIO pkg S/R instead of SBO_WRITEVECTOR (fix byte-swap Pb). |
3477 |
|
o time-average: |
3478 |
|
- use simple cumulative-time array (no k index) in all pkgs: {PKG}_timeAve(bi,bj) |
3479 |
|
(pkgs: aim_v23, bulk_force, dic, gmredi, kpp, land, ocn_compon_interf, |
3480 |
|
ggl90, my82, opps, pp81, ptracers, sbo, seaice, shelfice, thsice) |
3481 |
|
this fix DIC_COST cumulative-time array (previously: bi,bj,k) |
3482 |
|
- fix 1rst call (nIter0) snap-shot output and accumulation (pkg/shelfice) |
3483 |
|
- fix missing accumulation for pkg/opps. |
3484 |
|
- cumulate fields only if doing time-ave output ({PKG}_taveFreq > 0) |
3485 |
|
(pkgs: ptracers, kpp, ocn_compon_interf, ggl90, my82, pp81); |
3486 |
|
- fix initialisation of time-ave vars and do only full time-step increment |
3487 |
|
(i.e.: no first & last "half time-step") (pkgs: ggl90, my82, opps, pp81); |
3488 |
|
o pkg/layers: |
3489 |
|
- use standard RW pkg S/R to write the output |
3490 |
|
and remove local write_fld version (which had a problem). |
3491 |
|
- use simple cumulative-time array (no level index) to fix time-ave S/R calls. |
3492 |
|
- fix LAYERS_CALC argument list. |
3493 |
|
o pkg/timeave: |
3494 |
|
- store cumulative-time in a simple tiled array (drop the level index) |
3495 |
|
- add new S/R (TIMEAVE_NORMALIZE) which uses simple cumulative-time array. |
3496 |
|
o pkg/ocn,aim_compon_interf |
3497 |
|
- changes for multi-threaded coupled run. (tested with ifort-11 on danton) |
3498 |
|
|
3499 |
|
checkpoint62 (2009/12/23) |
3500 |
|
o switch on useOBCSbalance in tutorial_plume_on_slope exp. and update output. |
3501 |
|
(was not previously tested in any other exp.) |
3502 |
|
o pkg/monitor: |
3503 |
|
- clean-up _RL/_RS version: add specific S/R for statistics with mask & volume: |
3504 |
|
mon_writestats_rl/s,F mon_calc_stats_rl/s.F ; will keep the old one |
3505 |
|
(mon_printstats_rl/s,F mon_stats_rl/s.F) just for bare statistics. |
3506 |
|
- use hFac & 2-D mask (instead of 3-D mask + hFac in previous mon_stats_rl.F). |
3507 |
|
- change del2 calculation. |
3508 |
|
- use interior masks (instead of maskH, <- to be remove). |
3509 |
|
- shorter monitor suffix for forcing stats ("forcing" instead of "extforcing"). |
3510 |
|
o mask & obcs: |
3511 |
|
- define 2-D "interior" masks (i.e., zero beyond OB) at 3 locations (C, W & S). |
3512 |
|
- move global area computation from ini_masks_etc.F to ini_linear_phisurf.F |
3513 |
|
(called after packages_init_fixed) |
3514 |
|
o pkg/obcs: |
3515 |
|
- move bi,bj loops into obcs_calc, so obcs_prescribe_read is called only once. |
3516 |
|
Fixes bug in obcs+exf with nSx*nSy.GT.1 |
3517 |
|
- fix multi-tile handling in obcs balance code |
3518 |
|
o nonHydrostatic: |
3519 |
|
- Implement AB-3 for non-hydrostatic vertical momentum ; |
3520 |
|
(change ordering of var. stored in pickup file when using NH) |
3521 |
|
- move NH code from solve_for_pressure.F to 2 new S/R: PRE_CG3D & POST_CG3D. |
3522 |
|
- add 2-D field to store Hydrostatic Surface Pressure adjusment from cg3d_x |
3523 |
|
(in prep. for new NH free surface form). |
3524 |
|
o pkg/obcs: |
3525 |
|
add files & OB-variables for wVel (Non-Hydrostatic) with useOBCSprescribe |
3526 |
|
o model/src: |
3527 |
|
fix 2-D solver initialisation for deep-atmosphere (p-coord) with topography |
3528 |
|
|
3529 |
|
checkpoint61z (2009/12/01) |
3530 |
|
o nonHydrostatic: |
3531 |
|
Fix missing vertical flux of vert. momentum near surface (k=1). This fixes |
3532 |
|
a spurious source of energy in simple baroclinic adjusment test case. |
3533 |
|
Update all non-hydrostatic exp output. |
3534 |
|
o model/src (3-d solver): |
3535 |
|
Change again 3-D solver free-surface RHS term when exactConserv=T: |
3536 |
|
simpler, consistent with exactConserv, and works with implicDiv2Dflow < 1 |
3537 |
|
(which was not the case with previous formulation). |
3538 |
|
To recover previous version, just reset "oldFreeSurfTerm" to previous value. |
3539 |
|
Affects results of exp. global_ocean.cs32x15.viscA4 & hs94.cs-32x32x5.impIGW. |
3540 |
|
o nonHydrostatic: |
3541 |
|
- compatible with implicDiv2Dflow < 1 ; + implement implicit factor |
3542 |
|
for Non-Hydrostatic pressure gradient (similar to implicSurfPress). |
3543 |
|
- change 3-D solver to work with r* (for now, only with linear free-surf.) |
3544 |
|
- add few debug diagnostics (cg3d_x, residual) |
3545 |
|
o model/src: |
3546 |
|
fix missing EmPmR in 3-D solver RHS (was in cg2d_b but missing in cg3d_b). |
3547 |
|
update output of exp. global_ocean.cs32x15.viscA4 |
3548 |
|
o update output of exp. global_ocean.cs32x15.icedyn after removing |
3549 |
|
#define SEAICE_OLD_AND_BAD_DISCRETIZATION from SEAICE_OPTIONS.h |
3550 |
|
o add entry points for Gianmaria's Nesting pkgs (from Contrib/nesting_sannino) |
3551 |
|
o mnc: add horizontal grid coordinates (XC,YC) and (XG,YG) to netcdf output |
3552 |
|
for complex grids, for now only to "state", "adstate", "adexf", "adseaice" |
3553 |
|
o model: add Christopher Wolfe's implemetation of the single reduction cg2d |
3554 |
|
(d'Azevedo, Eijkhout, and Romine, 1999) with CPP-flag ALLOW_SRCG and |
3555 |
|
runtime flag useSRCGSolver. Modify verification experiment global_with_exf |
3556 |
|
to test this code |
3557 |
|
o pkg/cd_code: |
3558 |
|
Change defaut D-grid time-stepping to get the same for D-grid momentum as for |
3559 |
|
C-grid momentum. D-grid velocity used to be stepped forward in time with |
3560 |
|
Adams-Bashforth only on surface pressure term. Tests show that using AB on |
3561 |
|
D-grid coriolis term improves stability (as expected from CD-scheme paper). |
3562 |
|
To reproduce old results, add 2 options (in CD_CODE_OPTIONS.h). |
3563 |
|
Update results of exp: global_with_exf (x2), ideal_2D_oce, isomip (x2), |
3564 |
|
lab_sea (3 Fwd +3 AD), natl_box (x2), tutorial_global_oce_biogeo (Fwd+AD), |
3565 |
|
tutorial_global_oce_latlon, tutorial_global_oce_optim & tutorial_tracer_adjsens. |
3566 |
|
Keep old results by adding CD_CODE_OPTIONS.h in exp: cfc_example, exp2, |
3567 |
|
global_ocean.90x40x15(+AD), global_ocean_ebm(+AD) and OpenAD. |
3568 |
|
o pkg/obcs: |
3569 |
|
- fix bug in initialisation (broken since Oct 1rst modification) |
3570 |
|
for useOBCSprescribe without useEXF. |
3571 |
|
|
3572 |
|
checkpoint61y (2009/11/15) |
3573 |
|
o pkg/seaice |
3574 |
|
- change (once again) the discretization for the evp solver: rather than |
3575 |
|
squaring the averages of strain rates, average the squares to give |
3576 |
|
a better approximation to VP behavior (in simple test); this breaks |
3577 |
|
verification experiments that use EVP (lab_sea and lab_sea.hb87) |
3578 |
|
--> update outputs |
3579 |
|
o add CPP-flag (in mom_calc_visc.F) and TAF directive (in gmredi_slope_limit) |
3580 |
|
to improve vectorization of adjoint code on TARGET_NEC_SX |
3581 |
|
o verification/vermix: |
3582 |
|
- change vermix to a more "classical" 1d column with high vertical |
3583 |
|
resolution, seasonal heat flux forcing and constant wind forcing |
3584 |
|
--> update outputs |
3585 |
|
o pkg/seaice |
3586 |
|
- fix diagnostics of principal stress components for EVP |
3587 |
|
- add optional diagnostics of non-linear convergence for LSOR solver |
3588 |
|
- make maximum zeta a runtime parameter |
3589 |
|
o model/src (3-d solver): |
3590 |
|
Undo modif from Dec 12, 2005 (solve_for_pressure.F cvs version v.49), |
3591 |
|
which consisted in removing the Surf. Non-Hydrostatic pressure from the |
3592 |
|
whole column and adding it to Eta (inspired from Casualli, 1999): |
3593 |
|
Only affects 3-D solver initial guess and only if using ExactConserv, |
3594 |
|
but tests did show a degradation of solver convergence. For this reason, |
3595 |
|
decide to disable this piece of code. |
3596 |
|
to recover previous version, just set zeroPsNH = exactConserv (line 78). |
3597 |
|
Update output of exp. global_ocean.cs32x15.viscA4 & hs94.cs-32x32x5.impIGW |
3598 |
|
o pkg/ggl90: |
3599 |
|
- fix previous modif (unfortunatly has not been documented here). |
3600 |
|
o pkg/seaice/autodiff: |
3601 |
|
- add CPP flag to include clipping of zeta in EVP code; |
3602 |
|
although clipping of zeta is not necessary for EVP and not recommended |
3603 |
|
it was done by default, now clipping is disabled by default |
3604 |
|
- modify computation and store zetaC/Z in seaice_evp for TAF |
3605 |
|
- add CPP-flag SEAICE_ALLOW_CLIPVELS (undefined by default) |
3606 |
|
- change seaice_calc_viscosities/strainrates for better |
3607 |
|
vectorization after AD by TAF |
3608 |
|
- rearrange common blocks in SEAICE.h once again for easier dumps of |
3609 |
|
adjoint output, adjust adcommon.h and g_common.h |
3610 |
|
- change flux form of default advection scheme for better vectorization |
3611 |
|
of adjoint code |
3612 |
|
- modify lab_sea/input.lsr to test the flux form of default advection |
3613 |
|
scheme |
3614 |
|
o autodiff: fix seaice fields in g_common.h (left over from 3 to 1 level |
3615 |
|
transition in checkpoint61r) |
3616 |
|
|
3617 |
|
checkpoint61x (2009/10/19) |
3618 |
|
o adjoint: adding two new verification experiments |
3619 |
|
* tutorial_global_biogeo: an online dic sensitivity experiment |
3620 |
|
(work with G. Forget) |
3621 |
|
* tutorial_dic_adjoffline: an offline dic sensitivity experiment |
3622 |
|
(an update of the Dutkiewicz et al., 2006 paper) |
3623 |
|
Both use the same CO2FLUX cost function, but different controls |
3624 |
|
Gradient checks look good, but some recomp. could still be traightened out |
3625 |
|
Should add xx_dic control variable to test at some point |
3626 |
|
o model/src: |
3627 |
|
add run-time parameters to check and/or mask initial Temp & Salt |
3628 |
|
o pkg/ptracers: |
3629 |
|
apply zonal filter (if used) to all passive tracers |
3630 |
|
|
3631 |
|
checkpoint61w (2009/10/12) |
3632 |
|
o adjoint: |
3633 |
|
* update and finish work on adjoint of dic package (G. Forget) |
3634 |
|
* start adjoint of offline package |
3635 |
|
* bug fix for cube-sphere TLM code (active_file_g.F) |
3636 |
|
o tutorial_global_oce_optim: |
3637 |
|
now tested with 4 tiles (change data.grdchk and update output_adm.txt) |
3638 |
|
and add SIZE.h_mpi for MPI testing |
3639 |
|
o pkg autodiff |
3640 |
|
- fix bug in autodiff_restore |
3641 |
|
- make genmake2 remove comments and empty lines from ad_input_code.f in |
3642 |
|
order to reduce file size (new script file remove_comments_sed) |
3643 |
|
o allows to specify vertical profile of vertical viscosity (viscArNr) |
3644 |
|
o pkg autodiff |
3645 |
|
autodiff_ini_model_io: comment out writing of grid information to netcdf |
3646 |
|
files, because at this time the grid fields are a bunch of zeros |
3647 |
|
(this is analogous to ini_mnc_vars.F) |
3648 |
|
o pkg seaice/autodiff: |
3649 |
|
left-over from removing the 3-time-level fields: |
3650 |
|
- small rearrangement of common blocks (SEAICE.h) |
3651 |
|
- fix field declaration in order to get meaningful output in |
3652 |
|
adseaice.*.nc (adcommon.h) |
3653 |
|
o pkg obcs: |
3654 |
|
- go through NH code only if nonHydrostatic=T |
3655 |
|
- fix restart for Orlanski (Hydrostatic; still to fix NH+Orlanski restart) |
3656 |
|
- move call to OBCS_CALC before SEAICE_MODEL which needs seaice-obc fields |
3657 |
|
=> Update output of experiment seaice_obcs |
3658 |
|
- useOBCSbalance: code is wrong with multi-tile / proc: add a stop. |
3659 |
|
- fix NH+Orlanski restart (add wvel OBC value in pickup file) |
3660 |
|
- fix restart for useOBCSprescribe + useEXF |
3661 |
|
o pkg ctrl |
3662 |
|
- make obcs as control parameter work also with useSingleCPUio |
3663 |
|
- replace a few sny and snx by Ny and Nx to be consistent with |
3664 |
|
ctrl_set_globfld_x/yz.F |
3665 |
|
o pkg seaice |
3666 |
|
- re-introduce global field frWtrAtm for the case of |
3667 |
|
ALLOW_MEAN_SFLUX_COST_CONTRIBUTION defined (SEAICE.h, seaice_growth.F) |
3668 |
|
- catch the case of an empty filename in seaice_cost_init_fixed.F |
3669 |
|
o pkg ecco: |
3670 |
|
- small bug fixes in the_main_loop |
3671 |
|
. fix order of monitor arguments |
3672 |
|
. change SEAICE_MULTILEVEL to SEAICE_MULTICATEGORY |
3673 |
|
. move include DYNVARS.h up outside the ALLOW_AUTODIFF_TAMC block so |
3674 |
|
that ALLOW_ECCO_FORWARD_RUN works with NONLIN_FRSURF |
3675 |
|
- replace cos(yc*deg2rad) by _rA in cost_mean_heat/saltflux.F, fix the |
3676 |
|
imbalance diagnostics for wmean_h/sflux = 0 |
3677 |
|
- add actual values to f_obcsn/s/w/e in ecco_cost_final.F |
3678 |
|
- catch the case of empty filenames in ecco_cost_init_fixed.F |
3679 |
|
and ecco_readparms.F |
3680 |
|
- fix the logic of wsalt=0.and.wsalt2=0 to wsalt=0.or.wsalt2=0 (and theta) |
3681 |
|
to make this statement meaningfull in ecco_cost_weights.F |
3682 |
|
o pkg zonal_filt: |
3683 |
|
- change ZONAL_FILTER S/R interface (allows to filter 2-D fields) |
3684 |
|
- when using rStar, filter uVel*hFacW instead of uVel |
3685 |
|
(tested without topography: fix a Pb of growing instability with NLFS) |
3686 |
|
o pkg/aim/thsice: |
3687 |
|
-Add capacity to read a Q-Flux to be applied in slab-mixed layer thsice_slab_ocean.F |
3688 |
|
(works as SST restoring) |
3689 |
|
o pkg/thsice: |
3690 |
|
-add specific parameter for salt restoring in slab mixed-layer |
3691 |
|
(by default equal to the temperature restoring) |
3692 |
|
|
3693 |
|
checkpoint61v (2009/09/21) |
3694 |
|
o pkg/kpp: |
3695 |
|
-add double diffusive contributions as a hack, turned off by default |
3696 |
|
for now, and the code can be excluded with a CPP-flag |
3697 |
|
EXCLUDE_KPP_DOUBLEDIFF just as EXCLUDE_KPP_SHEAR_MIX |
3698 |
|
-add a verification experiments to "vermix" to test this code |
3699 |
|
o pkg/mom_common: |
3700 |
|
Move computation of length scales to mom_init_fixed.F (avoid recomputation |
3701 |
|
at each time-steps*levels). |
3702 |
|
o pkg/layers: |
3703 |
|
Created a new package for computing volume fluxes in temperature or |
3704 |
|
[not yet implemented] density layers, e.g. for calculating residual |
3705 |
|
overturning circulations. |
3706 |
|
o pkg/diagnostics: |
3707 |
|
implement a RS type version for the set of DIAGNOSTICS-FILL subroutines |
3708 |
|
o fix few RS/RL type mismatch (check with ifort 11.1 "-warn all" option) |
3709 |
|
o pkg/mdsio (& pkg/rw): rework high level S/R interface: |
3710 |
|
To avoid mixing type (RS/RL) of input/output array argument, |
3711 |
|
replace single mixed-type array with a pair from each type (RS/RL). |
3712 |
|
o setting pickupSuff force to start from a pickup (even if nIter0=0): this |
3713 |
|
is now implemented for all pkgs (previously only done for the main pickup) |
3714 |
|
|
3715 |
|
checkpoint61u (2009/08/25) |
3716 |
|
o pkg/obcs: |
3717 |
|
- change OB?eta from _RS to _RL and put them into a separate commen block |
3718 |
|
- add code to read OB?eta from a file via obcs_prescribe_read: the code |
3719 |
|
compiles and does not destroy any other experiments, the data is read |
3720 |
|
properly, but the code is not tested in actual applications |
3721 |
|
o ini_mnc_vars.F: if available (ALLOW_CAL), use startTime_1 and 2 to |
3722 |
|
create a meaningful unit attribute for the time coordinate variable |
3723 |
|
o pkg/ebm: add plenty of missing "_d 0" ; |
3724 |
|
update results of experiment global_ocean_ebm (fwd + adjoint tests) |
3725 |
|
Notes: several pieces of code only works for (very) specific set up |
3726 |
|
(domain size, lat range, etc ...); should be documented & stop if one |
3727 |
|
of those assumptions is not meet. |
3728 |
|
o pkg/seaice: add missing "_d 0" in HSNOW initialisation |
3729 |
|
update results of experiments: lab_sea (3 fwd tests + 2 adjoint tests) |
3730 |
|
and offline_exf_seaice (seaicetd + adjoint). |
3731 |
|
o add missing "_d 0" in ShortWave flux penetration (S/R SWFRAC): |
3732 |
|
update results of experiments: lab_sea (4 fwd tests + 3 adjoint), |
3733 |
|
seaice_obcs, global_ocean.cs32x15 (icedyn & thsice) and natl_box (x2). |
3734 |
|
o few changes to pass when compiling with strick checking of arguments |
3735 |
|
across S/R (allow to find few bugs in S/R calls). |
3736 |
|
o pkg/seaice: |
3737 |
|
- seaice_evp: move if-statement out of loop (TEM) at the cost of 11 new |
3738 |
|
2d-fields, for slightly better performance |
3739 |
|
|
3740 |
|
checkpoint61t (2009/07/22) |
3741 |
|
o pkg/seaice: |
3742 |
|
- remove unused variables in seaice_evp |
3743 |
|
- reduce number of SQRT in seaice_evp and seaice_calc_viscosities |
3744 |
|
o eeset_parms.F, open_copy_data_file.F & ini_parms.F: |
3745 |
|
named file replacing SCRATCH files (for TARGET_BGL & TARGET_CRAYXT): |
3746 |
|
each processor opens a different file (a fix from Matt). |
3747 |
|
o cg2d: |
3748 |
|
use simple EXCH (overlap size = 1 and ignore corners), like in cg3d.F : |
3749 |
|
this reduces number of EXCH calls by 2 when using exch2. |
3750 |
|
For now, keep previous size array for gc2d_nsa.F to avoid Pb with store |
3751 |
|
directives and missing simple EXCH (exch_s3d_rx) adjoint code. |
3752 |
|
o pkg/thsice: |
3753 |
|
add code for Near Infra-Red albedo (from Jeff) |
3754 |
|
(turned on with run-time flag: thSIce_calc_albNIR, in data.ice). |
3755 |
|
o ini_model_io: |
3756 |
|
move (from packages_readparms.F & initialise_fixed.F) to ini_model_io.F |
3757 |
|
MNC & MONITOR initialisation calls; move MNC calls from {pkg}_readparms.F |
3758 |
|
to {pkg}_init_fixed.F for {pkg}= kpp, seaice & shelfice. |
3759 |
|
|
3760 |
|
checkpoint61s (2009/06/30) |
3761 |
|
o pkg/exch2 (exch2_rxN_cube*): |
3762 |
|
remove last BARRIER (no need to synchronise after getting data from shared |
3763 |
|
buffer (get) as long as any change to buffer (put,recv) is between BARRIER) |
3764 |
|
o change tiling of natl_box (from 2 to 4 tiles) to get it tested with MPI+MTH |
3765 |
|
and generate new output (for the 2 tests) using default rotationPeriod. |
3766 |
|
o pkg/exch2: |
3767 |
|
- always call exch2_*_cube, not exch-1 anymore, if useCubedSphereExchange=F |
3768 |
|
(was already the case with AUTODIFF_EXCH2 defined) |
3769 |
|
- add bj in exch2 arrays and S/R. |
3770 |
|
- can now use pkg/exch2 for regular (non CS) set-up; switch test experiment |
3771 |
|
MLAdjust to exch2 (identical results except with MPI -> truncation diff); |
3772 |
|
o add pkg/longstep for ptracer timestep a multiple of U/V/T/S timestep |
3773 |
|
- adds deltaT argument to the subroutines TIMESTEP_TRACER DWNSLP_APPLY |
3774 |
|
GAD_ADVECTION GAD_CALC_RHS GAD_IMPLICIT_R GAD_SOM_ADVECT |
3775 |
|
- verification experiment natl_box.longstep |
3776 |
|
o build_options: ifort+mpi_aces optfile (following Constantinos advise): |
3777 |
|
allow different versions of ifort (8 or 9) and different versions |
3778 |
|
of mpi (mpich or mpich2) to be used with the same optfile. |
3779 |
|
requires to load a netcdf module and set MPI_INC_DIR (see comments inside |
3780 |
|
optfile). Change testing scripts (example_scripts/ACESgrid) accordingly. |
3781 |
|
o pkg/seaice: |
3782 |
|
fix previous modif (3-level field removed) for old-pickup reading |
3783 |
|
|
3784 |
|
checkpoint61r (2009/06/25) |
3785 |
|
o pkg/seaice: |
3786 |
|
- clean up the 3-time levels of UICE,VICE,HEFF,AREA in three steps: |
3787 |
|
1. introduce fields for time step (N-1) |
3788 |
|
2. do not use levels 2 and 3 anymore (but keep them) |
3789 |
|
3. replace 3D versions of UICE,VICE,HEFF,AREA by 2D versions. This |
3790 |
|
includes changes to pkg/thsice/thsice_get_velocity.F, |
3791 |
|
model/src/external_forcing_surf.F, pkg/obcs/obcs_apply_seaice.F, and |
3792 |
|
pkg/obcs/obcs_apply_uvice.F. |
3793 |
|
- completely remove code for leap-frog time stepping for second order |
3794 |
|
advection |
3795 |
|
- adjusted adjoint accordingly; |
3796 |
|
gradient checks have improved by an order of magnitude! |
3797 |
|
|
3798 |
|
checkpoint61q (2009/06/22) |
3799 |
|
o pkg/seaice: fix bug in free slip boundary conditons for LSOR solver |
3800 |
|
- the boundary conditions along open boundaries are unclear, because the |
3801 |
|
associated masks are set to zero and are thus treated as closed when |
3802 |
|
applying the slip-boundary conditions. |
3803 |
|
- move initialisation of grid variables from seaice_init_varia to _fixed |
3804 |
|
o adding doc/diags_changes.txt |
3805 |
|
o model/src: |
3806 |
|
do_the_model_io: rename few pkg S/R which are called from do_the_model_io, |
3807 |
|
to avoid "_diags" naming if no relation to pkg/diagnostics. |
3808 |
|
ini_theta,ini_salt: fix (at least compile the code) reading from NetCDF |
3809 |
|
file and only call PLOT_FIELD_XYZ if debugMode=T. |
3810 |
|
remove few PLOT_FIELD_XY calls outside initialisation. |
3811 |
|
remove few unnecessary BARRIER. |
3812 |
|
o pkg/salt_plume: add SaltPlumeSouthernOcean to allow disabling |
3813 |
|
of salt_plume package in Southern Ocean |
3814 |
|
o pkg/thsice: |
3815 |
|
- fix hOceMxL in overlap (needed for sea-ice advection); |
3816 |
|
update output of experiment global_ocean.cs32x15.icedyn. |
3817 |
|
o pkg/seaice: |
3818 |
|
- make the (placeholder-)tracer IceAge a little more meaningful |
3819 |
|
by avoiding ridging of age due to convergent ice flow |
3820 |
|
- add diagnostics for surface temperature, atmospheric and oceanic |
3821 |
|
heat flux, and atmospheric and oceanic ice growth |
3822 |
|
|
3823 |
|
checkpoint61p (2009/06/10) |
3824 |
|
o eesupp (global_max & global_sum): |
3825 |
|
- add one more element to buffer (start at index 0) for GL_MAX/SUM output; |
3826 |
|
- remove starting & endding barrier (no longer needed) |
3827 |
|
o pkg/mdsio, writelocal: |
3828 |
|
works also in multi-threaded when LOCBIN_IO_THREAD_SAFE is undefined |
3829 |
|
(remove the STOP): uses shared buffer IO to store data from all threads |
3830 |
|
and then let master-thread write nThreads tiles. |
3831 |
|
o pkg/mdsio (read/write field): |
3832 |
|
- tiled IO done in 1 piece (all levels at a time); |
3833 |
|
- new header file "MDSIO_BUFF_3D.h" with 3-D buffers. |
3834 |
|
- multi-threaded: allow to read/write local (non-shared) array |
3835 |
|
(was already working with singleCpuIO ; now works also without); |
3836 |
|
=> no longer needs barrier call after reading a file (added inside |
3837 |
|
mds_read/write field). |
3838 |
|
- move barrier calls outside gather/scatter_2d to mds_read/write_field |
3839 |
|
o pkg/obcs/exf |
3840 |
|
- exf_getffieldrec.F: add a few ". _d 0" and |
3841 |
|
add code to catch the case fldperiod = 0. |
3842 |
|
- obcs_precribe_read.F: change if statements so that they match |
3843 |
|
the variable type (_RL) |
3844 |
|
- add a separate exf_iprec_obcs to exf_set_obcs (by default equal to |
3845 |
|
exf_iprec) as part of namelist EXF_NML_01 |
3846 |
|
o pkg/mdsio: |
3847 |
|
- read/write tiled (local) files: read/write 1-level tile chunk at a time |
3848 |
|
(instead of segment of length sNx); expected to speed up tiled IO. |
3849 |
|
o pkg/exch2: |
3850 |
|
- take buffer copy from/to array out of S/R exch2_send/recv into new |
3851 |
|
S/R exch2_put/get ; Exch of local variable now works with MPI+MTH |
3852 |
|
(tested by removing commom block statement in SOLVE_FOR_PRESSURE.h). |
3853 |
|
- ad version of send/recv no longer needed (but needs exch2_ad_put/ad_get) |
3854 |
|
- simplify argument list of S/R exch2_get_uv_bounds and exch2_get_scal_bounds |
3855 |
|
(which replaces exch2_get_recv_bounds & exch2_get_send_bounds) by |
3856 |
|
including Topology header file (and common blocks). |
3857 |
|
- implement EXCH_IGNORE_CORNERS in scalar exchange (rx1); |
3858 |
|
remove 2nd exch call in exch2_s3d_rx (no longer needed). |
3859 |
|
- document S/R arg. list (+ update some comments) |
3860 |
|
o pkg/seaice: |
3861 |
|
- added SEAICE_CLIM_AIR code, which permits modulation of surface air |
3862 |
|
temperature and humidity over sea ice based on climatological values. |
3863 |
|
- clean up computation of Hibler+Bryan (1987) stress coupling for the case |
3864 |
|
of LSR (this change is expected to change the results slightly because now |
3865 |
|
it uses slightly difference moduli from the second last LSR solution, but |
3866 |
|
that is more consistent with the stress computations; this part of the code |
3867 |
|
is not tested in the verification experiments) |
3868 |
|
- fix diagnostics for flux of ice in case of B-grid |
3869 |
|
- turn strain rates eij and press into global fields within global |
3870 |
|
common block in SEAICE.h for more straighforward diagnostics |
3871 |
|
- fix diagnostics for principal stress components, press, zeta, eta |
3872 |
|
to give something meaning full |
3873 |
|
o change tiling of global_ocean.cs32x15 (12 tiles, 32x16) and generate |
3874 |
|
new output (all 4 tests) using default rotationPeriod. |
3875 |
|
o pkg KPP: |
3876 |
|
- add flag (LimitHblStable) to avoid limiting BL depth under stable conditions |
3877 |
|
- fix vertical indices in RI_IWMIX (match between KPP grid from 0 to Nr+1 |
3878 |
|
and normal grid from 1 to Nr) |
3879 |
|
o Fix computations of L4rdt in mom_calc_visc.F |
3880 |
|
o eesupp: |
3881 |
|
new S/R ALL_PROC_DIE (like EEDIE, without irrelevant threads err msg): |
3882 |
|
should be called before a "stop" if we know that all process are going |
3883 |
|
to stop; if one Proc does call this S/R, will hang in MPI_FINALISE. |
3884 |
|
|
3885 |
|
checkpoint61o (2009/05/26) |
3886 |
|
o pkg/exch2: change check_depths to issue just a warning (instead of error+stop) |
3887 |
|
o model/src/ini_curvilinear_grid.F: |
3888 |
|
compute angleSin/CosC when they are not read from a file |
3889 |
|
o pkg/seaice: |
3890 |
|
add pseudo time stepping for LSOR |
3891 |
|
o pkg/exch2: |
3892 |
|
temporary fix for exch2_s3d_rx; update results of exp. hs94.cs-32x32x5.impIGW |
3893 |
|
o pkg/seaice: |
3894 |
|
Adding separate sea ice albedo, drag coefficients, and HO in Southern |
3895 |
|
Ocean from those in Arctic Ocean. See *_south in SEAICE_PARAMS.h |
3896 |
|
o SingleCpuIO: |
3897 |
|
fix bug put before chkp61n (May 11), when more than 2 MPI cpu are used. |
3898 |
|
o pkg/seaice: |
3899 |
|
put exchanged variable in (local) common block for MPI+Multi-Threads |
3900 |
|
to work (necessary with exch1, and for now with exch2 too). |
3901 |
|
o verification: to get more experiments tested with mpi, mth and mpi+mth, |
3902 |
|
change tiling of: |
3903 |
|
aim.5l_Equatorial_Channel, aim.5l_LatLon, dome, exp4, global_ocean.90x40x15, |
3904 |
|
hs94.cs-32x32x5, MLAdjust, offline_exf_seaice & tutorial_plume_on_slope |
3905 |
|
update output of exp: |
3906 |
|
exp4, global_ocean.90x40x15(+.dwslp), MLAdjust(all 5), |
3907 |
|
tutorial_plume_on_slope and hs94.cs-32x32x5 (use default rotationPeriod) |
3908 |
|
+ ideal_2D_ocean: use default rotation period + test Global_Sum_SINGLECPU |
3909 |
|
(note: output.txt generated on faulks using only 1 tile) |
3910 |
|
o eesupp & mdsio (SingleCpuIO): |
3911 |
|
- remove MISSING_TILE_IO (from MDSIO_OPTIONS.h), replaced by run-time |
3912 |
|
parameter "W2_useE2ioLayOut" (read from file "data.exch2"). |
3913 |
|
Note: was not effective for globalFile & useSingleCpuIO=F; now fixed. |
3914 |
|
- move MDSIO_SCPU.h (pkg/mdsio) to EEBUFF_SCPU.h (eesupp/inc). |
3915 |
|
- fix GLOBAL_SUM_SINGLECPU when using Exch2; re-use same buffers and same |
3916 |
|
gather/scatter S/R as with SingleCpuIO (=> 1 less 2D global RL array). |
3917 |
|
o pkg/exch2: |
3918 |
|
- new code to set-up W2-Exch2 topology (replace matlab-topology-generator): |
3919 |
|
read parameter file "data.exch2" if it exists; otherwise try default regular |
3920 |
|
cube without blank-tile; new header file "W2_EXCH2_SIZE.h"; |
3921 |
|
- update matlab-topology-generator (exch2_setup_cs6_print.m) to be compatible |
3922 |
|
with new code (not to be used, just as a backup solution). |
3923 |
|
- add examples (e.g., for lat-lon-cap_120) of parameter file "data.exch2" |
3924 |
|
in utils/exch2/input. |
3925 |
|
|
3926 |
|
checkpoint61n (2009/05/12) |
3927 |
|
o eesupp & mdsio (SingleCpuIO): |
3928 |
|
- move mapping to global io-buffer inside gather_2d/scater_2d: this save |
3929 |
|
memory (1 less 2D global RL array); skip 1 buffer copy; and only send/ |
3930 |
|
receive real*4 array (instead of real*8) to read/write 32.bit files. |
3931 |
|
(new template for gather_2d/scater_2d, new set of S/R MDS_PASS_R4,8toRL,S |
3932 |
|
and remove new mapping S/R) |
3933 |
|
o pkg/mdsio: in preparation for topology-generator within pkg/exch2: |
3934 |
|
- Change declaration of SingleCpuIO buffer, reduced to only 1 dim.: |
3935 |
|
xyBuffer_size, which is set to W2_ioBufferSize from W2_EXCH2_PARAMS.h |
3936 |
|
when using exch2. Add S/R to map global io-buffer to global model array. |
3937 |
|
- uses exch2_global_Nx,y instead of exch2_domain_nxt,nyt. |
3938 |
|
|
3939 |
|
checkpoint61m (2009/04/29) |
3940 |
|
o write_utils : change WRITE_1D_R8 to WRITE_1D_RL |
3941 |
|
and add 3 other S/R for other types (R4,R8,RS). |
3942 |
|
Change calls to WRITE_0D/1D_R[4,8,S,L] to match the type of argument. |
3943 |
|
o eesupp/inc/CPP_EEMACROS.h (EXCH & GLOBAL_SUM/MAX macros): |
3944 |
|
- ensure suffix (_R4,_R8,_RS,_RL) correspondance between macro and S/R ; |
3945 |
|
- reduce number of macro definitions (keep only those which are used); |
3946 |
|
can always call directly the corrresponding S/R if needed. |
3947 |
|
- everywhere in the code: change macros (EXCH & GLOBAL_SUM/MAX) suffix |
3948 |
|
_R4/_R8 to _RS/_RL when applied to _RS/_RL variable. |
3949 |
|
Fixed wrong type of arg in: |
3950 |
|
atm2d/put_ocnvars.F cheapaml/cheapaml.F ocn_compon_interf/ocn_apply_import.F |
3951 |
|
ctrl/ctrl_map_ini_ecco.F seaice/seaice_do_diags.F seaice/seaice_model.F |
3952 |
|
To fix: global_sum of var in common block is wrong (multi-threaded) in: |
3953 |
|
dic/dic_atmos.F ebm/ebm_area_t.F ebm/ebm_zonalmean.F sbo/sbo_calc.F |
3954 |
|
To fix: aim_v23/aim_do_co2.F (BARRIER & GLOBAL_SUM within bi,bj loops) |
3955 |
|
o adjustment.cs-32x32x1: test "blank tiles" when compiling with mpi; 2nd |
3956 |
|
"nlfs" mpi test is going to stop when checking for unconnected tile egdes. |
3957 |
|
o eesupp/src: new S/R to stop everyone when 1 (or more) Proc. find an error |
3958 |
|
o pkg/exch2: new S/R EXCH2_CHECK_DEPTHS to check that unconnected tile |
3959 |
|
edges are closed (zero depth); might happen with "blank tiles"; |
3960 |
|
for now, disabled if using OBCS. |
3961 |
|
o tools/gemake2: delete modifs from March 27-29 2009 (with option "-mpi": |
3962 |
|
link *_mpi files from "MODS" dir) to return to a strait-forward behavior. |
3963 |
|
o move read_write.F to write_utils.F ; new parameter (maxLengthPrt1D) |
3964 |
|
to reduce length of 1.D array print in STDOUT. |
3965 |
|
o adjustment.cs-32x32x1: changed to oceanic test with 1 continent |
3966 |
|
+ use 48 tiles (16x8): this will allow to test "blank tiles". |
3967 |
|
o start to test MPI + multi-threaded (change testreport to skip tests |
3968 |
|
where number of tiles do not match). |
3969 |
|
o genmake2: add option "-omp" to turn on Open-MP ; |
3970 |
|
passed to testreport (if using -mth) ; merge few (*+mth) optfiles. |
3971 |
|
o pkg/exch2 (+ utils/exch2): ignore blank tiles (instead of removing them) |
3972 |
|
and keep the original tile numbering. Note: compatible with old |
3973 |
|
W2_EXCH2_TOPOLOGY.h & w2_e2setup.F topology files. |
3974 |
|
|
3975 |
|
checkpoint61l (2009/04/07) |
3976 |
|
o Overlaps had been forgotten in calculating ijk keys : fixed |
3977 |
|
o fix cyrus makedepend for gcc 4.4 |
3978 |
|
o experiment fizhi-cs-aqualev20: |
3979 |
|
switching to new version of S/R GETPWHERE (#define TRY_NEW_GETPWHERE) |
3980 |
|
and generate new output. Note: new output is much closer to the old |
3981 |
|
one (v1.8) generated with pgf77 -O2 on Mar 14 2007 than it is from |
3982 |
|
the previous one (v1.9) generated with pgf77 -O0 on Jun 13 2007. |
3983 |
|
o pkg/fizhi: |
3984 |
|
- change to avoid indices going deliberately over array-bounds |
3985 |
|
- remove unnecessary MPI stuff |
3986 |
|
- perpetual spring equinox with "#define FIZHI_USE_FIXED_DAY" |
3987 |
|
- new version of S/R GETPWHERE available with #define TRY_NEW_GETPWHERE: |
3988 |
|
does not go over array-bounds and therefore returns reliable output. |
3989 |
|
- in fizhi_driver.F & fizhi_turb.F, fix "get_alarm" calls: |
3990 |
|
this S/R has 4 output arguments, which are used inside "get_alarm"; |
3991 |
|
when it is called with the same variable "ndum" in place of several |
3992 |
|
output arguments, this produces weird side effect inside "get_alarm" |
3993 |
|
(e.g., datein=dates(n) is overwritten by timein=times(n) since both |
3994 |
|
datein & timein, resp. 2nd and 3rd arg., are pointed to the same "ndum" |
3995 |
|
address) and produces error. |
3996 |
|
o tools/gemake2: (March 27-29 2009) |
3997 |
|
with option "-mpi": link *_mpi files from "MODS" dir (this is what |
3998 |
|
testreport does). |
3999 |
|
o lab_sea experiment: change from 2x1 tiles to 2x2 tiles and regenerate output |
4000 |
|
o pkg/seaice: fix bug in new version of S/R SEAICE_LSR.F: |
4001 |
|
update lab_sea.lsr & lab_sea.salt_plume results |
4002 |
|
o pkg/seaice: |
4003 |
|
Major overhaul of the LSOR solver: change discretization from original |
4004 |
|
finite differences to finite volume. The old routine is still in the |
4005 |
|
file seaice_lsr.F and can be turned on with the CPP-flag |
4006 |
|
SEAICE_OLD_AND_BAD_DISCRETIZATION |
4007 |
|
Along with this change, the discretization of the strain rates is changed. |
4008 |
|
The same flag turns on the old discretization in seaice_calc_strainrates.F |
4009 |
|
All verification experiments with seaice are affected (except for |
4010 |
|
seaice_exf_offline); global_ocean.cs32x15/input.icedyn recovers the old |
4011 |
|
results by setting the above flag. |
4012 |
|
Further changes involve changes in defaults: |
4013 |
|
- ALLOW_FLOODING is defined and turned on by default |
4014 |
|
- SEAICEadvSnow = .true. is now the default |
4015 |
|
- SEAICEadvSalt = .true. is now the default |
4016 |
|
- SEAICEadvAge = .true. is now the default |
4017 |
|
- SEAICE_clipVelocities = .false. is now the default |
4018 |
|
(as per J. Zhang's recommendation) |
4019 |
|
- B-grid, and thus not tested: SEAICE_TEST_ICE_STRESS_1/EXPLICIT_SSH_SLOPE |
4020 |
|
is defined, SEAICE_TEST_ICE_STRESS_1 is renamed into SEAICE_BICE_STRESS |
4021 |
|
- seaice_growth: replace computation of UG by a simple copy from wspeed |
4022 |
|
|
4023 |
|
checkpoint61k (2009/03/18) |
4024 |
|
o pkg/seaice: a few bug fixes mostly concerning the metric terms: |
4025 |
|
seaice_lsr: fixed a few metric terms, |
4026 |
|
affects lab_sea.lsr, lab_sea.salt_plume, seaice_obcs |
4027 |
|
add more debugging diagnostics |
4028 |
|
seaice_evp: removed superfluous many metric terms of FV discretization |
4029 |
|
of stress divergence |
4030 |
|
affects lab_sea, lab_sea.hb87 |
4031 |
|
seaice_ocean_stress: removed superfluous many metric terms of FV discretization |
4032 |
|
of stress divergence for non-evp solver |
4033 |
|
(this part is not tested anywhere) |
4034 |
|
seaice_calc_strainrates: fixed a bug in no-slip boundary conditions, |
4035 |
|
they were effectively only half slip |
4036 |
|
affects lab_sea.hb87 |
4037 |
|
updated all relevant verification experiments (except lab_sea//output_adm.txt |
4038 |
|
which was left over, but fails at level 7 & 6) |
4039 |
|
|
4040 |
|
checkpoint61j (2009/03/17) |
4041 |
|
o pkg/seaice: turn a few hard wired parameters into run time parameters |
4042 |
|
o pkg/seaice/exf/monitor: turn netcdf coordinate variable T into model |
4043 |
|
time in seconds as promised by the usints in seaice_monitor and exf_monitor |
4044 |
|
o pkg/mnc: fix the coordinate variables for multi-tile curvi-linear grids |
4045 |
|
that are not cubed-sphere grids |
4046 |
|
o pkg/seaice: fix a bug for the rare case of SEAICE_VECTORIZE_LSR |
4047 |
|
o pkg/ctrl: |
4048 |
|
fix bug in ctrl_depth_ini.F (EXCH_XYZ was applied to 2-D field xx_r_low) |
4049 |
|
o non-hydrostatic (calc_gw.F): |
4050 |
|
fix viscA4 on CS-grid + fix diagnostics: Wm_Diss & Wm_Advec |
4051 |
|
update output of exp. global_ocean.cs32x15.viscA4 |
4052 |
|
o remove backward compatibility for thetaMin,phiMin |
4053 |
|
(replaced by xgOrigin,ygOrigin on Jan 27, 2009) |
4054 |
|
o pkg/exf: fix a serious bug in exf_set_uv.F: do a rotation of the |
4055 |
|
interpolated wind field not only for curvilineargrid=.true., but also |
4056 |
|
for a rotated grid (rotateGrid=.true.) |
4057 |
|
o pkg/exf: add capability to bypass interpolation for runoff |
4058 |
|
by setting yet another CPP-flag |
4059 |
|
o eesupp/src, B-grid exchange: |
4060 |
|
add simple (6 tiles, non MPI) CS exch + standard interface S/R. |
4061 |
|
o autodiff |
4062 |
|
new CPP option ALLOW_TAMC_SINGLEPREC_COMLEV |
4063 |
|
allows to switch to single-prec common blocks; |
4064 |
|
corresponding switch occurs in tamc.h, integer isbyte |
4065 |
|
TAF store directivs "byte" and "kind" seem equivalent; |
4066 |
|
Most tamc.h have been updated correspondingly. |
4067 |
|
|
4068 |
|
checkpoint61i (2009/02/13) |
4069 |
|
o autodiff: |
4070 |
|
fix autodiff_sore/_restore indices for obcs |
4071 |
|
(spotted by I. Hoteit, M. Mazloff) |
4072 |
|
o pkg/autodiff, pkg/ctrl: |
4073 |
|
Add flag to reduce all tapelev I/O to single-prec. |
4074 |
|
In data.ctrl set |
4075 |
|
doSinglePrecTapelev = .TRUE. |
4076 |
|
o model/src/ini_curvilinear_grid.F, new grid-file format without EXCH2: |
4077 |
|
check in hack for SX8 compiler (for dxV, dyU); remove it afterwards. |
4078 |
|
o pkg/shelfice: fix bug with SHELFICEconserve flag, prepare for |
4079 |
|
real fresh water flux (not yet) |
4080 |
|
o pkg/mdsio & rw: |
4081 |
|
- add argument & option to S/R MDS_WRITEVEC_LOC (avoid Open/Close & write-meta) |
4082 |
|
- add simple interface S/R to MDS_WRITEVEC_LOC in pkg/rw: WRITE_GLVEC_RX. |
4083 |
|
o pkg/flt: |
4084 |
|
- replace FLT_INIT by 3-steps standard initialization S/R: readparms, |
4085 |
|
init_fixed & ini_varia. |
4086 |
|
- clean-up & simplify linear interpolation S/R: |
4087 |
|
move flt_bilinear.F -> flt_interp_linear.F ; add arg. myThid. |
4088 |
|
- fix some indices (mainly vertical index) ; add IMPLICIT NONE. |
4089 |
|
- more efficient I/O, using new options of MDS_WRITEVEC_LOC S/R. |
4090 |
|
- add vert. coordinate & horiz. indices to output files. |
4091 |
|
- change vertical position in initial condition, from index to depth [m]. |
4092 |
|
- store horizontal (decimal) indices i,j in common block (instead of coord. x,y) |
4093 |
|
(easier to get to a curvilinear grid) ; delX,delY no longer used. |
4094 |
|
o pkg/ggl90: a few modifications: |
4095 |
|
- fix bottom boundary condition, and interpolation of KappaE |
4096 |
|
near top and bottom |
4097 |
|
- use same set of viscosity/diffusivity for TKE/momnetum/tracer |
4098 |
|
- add smoothing option as in Blanke and Delecluse (1993) (--> ALLOW_GGL90_SMOOTH) |
4099 |
|
- add a few options for mixing-length upper limit (--> mxlMaxFlag) |
4100 |
|
o rename thetaMin,phiMin -> xgOrigin,ygOrigin |
4101 |
|
(maintain temporary backward compatibility, until next checkpoint) |
4102 |
|
|
4103 |
|
checkpoint61h (2009/01/27) |
4104 |
|
o pkg/diagnostics with "periodic averaging diagnostics": |
4105 |
|
fix S/R DIAGNOSTICS_COUNT ; hack diagnostics_out.F to get NetCDF output. |
4106 |
|
o pkg/my82: add missing "_d 0" ; update output of exp. vermix.my82 |
4107 |
|
o pkg/obcs: fix loop ranges for balancing code |
4108 |
|
o pkg/flt: |
4109 |
|
- improve criteria for finding which tile owns a float. |
4110 |
|
- fix FLT_EXCH for case without MPI ; apply cyclic BC + fix also the MPI case. |
4111 |
|
o Add well-mixed CO2 box in aim_v23 (which includes changes in pkg |
4112 |
|
aim_compon_interf, ocn_compon_interf, gchem, and dic to get coupling |
4113 |
|
with ocean biogeo) |
4114 |
|
o pkg/flt: |
4115 |
|
- do some cleaning and fix the restart ; |
4116 |
|
- add output.txt in flt_example/results to get this pkg tested. |
4117 |
|
o genmake2: add an EXTENDED_SRC option and flag. |
4118 |
|
for now, cannot be turned on on command line (only through genmake_local) |
4119 |
|
o pkg/mdsio: read/write vector: |
4120 |
|
- singleCpuIO: fix RL/RS in MDSWRITEVECTOR by calling new S/R MDS_BUFFERtoRL/RS |
4121 |
|
- singleCpuIO=F: fix arrType & filePrec & _BYTESWAPIO in both MDSREADVECTOR |
4122 |
|
& MDSWRITEVECTOR by calling new S/R MDS_RD/WR_VEC_RL/RS. |
4123 |
|
- affects gradient of test-exp "bottom_ctrl_5x5" (not due to _BYTESWAPIO) |
4124 |
|
(drop to 4 digits matching for grad). But this test does not look very |
4125 |
|
reliable (was already failling on eddy, fc5, at 6.digits). Update output. |
4126 |
|
|
4127 |
|
checkpoint61g (2008/12/29) |
4128 |
|
o pkg/flt: |
4129 |
|
- move FLT_CPPOPTIONS.h to FLT_OPTIONS.h (standard name) |
4130 |
|
+ make OPTIONS file more standard. |
4131 |
|
- rename S/R MDSREADVECTOR_FLT to FLT_MDSREADVECTOR (to mach src file name) |
4132 |
|
- fix _BYTESWAPIO CPP-Flag |
4133 |
|
- standard reading of file-parameter "data.flt" |
4134 |
|
- fix argument list of S/R FLT_RESTART |
4135 |
|
still need to fix _BYTESWAPIO in pkg/mdsio/mdsio_writevector.F |
4136 |
|
o pkg/obcs: fix a CPP-flag, bug reported by Jeff Blundell |
4137 |
|
o gather_2d.F/scatter_2d.F: suppress vectorisation on NEC SX in respond to |
4138 |
|
a still unfixed compiler/optimization bug |
4139 |
|
|
4140 |
|
checkpoint61f (2008/11/21) |
4141 |
|
o pkg/seaice, LSR solver: fix bug in GLOBAL_MAX calls ; |
4142 |
|
update results of global_ocean.cs32x15.icedyn test. |
4143 |
|
o move getcon.F from model/src to pkg/fizhi. |
4144 |
|
o pkg/exf: add parameter for extrapolation of temp up to the surface |
4145 |
|
and option to prevent negative evap (in bulk_largeyeager04 only). |
4146 |
|
o Prather Advection scheme: fix tracer conservation for divergent flow |
4147 |
|
(e.g., when using NonLin Free-Surface). |
4148 |
|
o kpp: retire KPPmld diagnostics --> use MXLDEPTH instead |
4149 |
|
o gmredi (Visbeck-variable-K): |
4150 |
|
- add more parameters to Visbeck-variable-K. |
4151 |
|
- use a 5 points average for dSigmaR in Visbeck-K calculation |
4152 |
|
(more "homogenous": same stencil and same weights as in dSigmaH) |
4153 |
|
- update output of ideal_2D_oce experiment. |
4154 |
|
o fix CPP-flag REAL4_IS_SLOW, when _RS expands into real*4 |
4155 |
|
(#undef REAL4_IS_SLOW) |
4156 |
|
- pkg/mnc/mnc_cw_cvars.F: write _RS-grid variable as netcdf-real*4 |
4157 |
|
coordinate variable |
4158 |
|
- pkg/monitor/monitor.F: call mon_printstats_rs for _RS variables |
4159 |
|
(surface forcing fields), removes some of the functionality |
4160 |
|
- model/src/write_grid.F: write _RS variables as RS-netcdf variables |
4161 |
|
- model/src/diags_oceanic_surf_flux.F: fix a few diagnostics, but |
4162 |
|
probably not all: copy _RS surface flux fields to RL field before |
4163 |
|
calling DIAGNOSTICS_FILL |
4164 |
|
- model/inc/CPP_EEMACROS.h: make the _EXCH_*_RS macros expand into |
4165 |
|
real*4 (CALL EXCH_*_RS) versions. |
4166 |
|
- tested in 2 experiments: inverted_barometer & solid-body.cs-32x32x1 |
4167 |
|
(generate new output). |
4168 |
|
|
4169 |
|
checkpoint61e (2008/10/23) |
4170 |
|
o gmredi (Visbeck-variable-K): |
4171 |
|
- fix the "OLD_VISBECK_CALC" option + move the #undef to GMREDI_OPTIONS.h |
4172 |
|
- change computation of Visbeck-K where Slope > Smax : |
4173 |
|
now: N*min(Slope,Smax) (similar to OLD_VISBECK_CALC with gkw91 taperFct) |
4174 |
|
previously was: M*sqrt(min(Slope,Smax)) ; update ideal_2D_oce output. |
4175 |
|
o bottom-drag in P-coord.: change units of bottomDragLinear & bottomDragQuadratic |
4176 |
|
to be the same as with Z-coord. (i.e., m/s & no-units respectively). |
4177 |
|
o calc_viscosity: fix index range (was wrong for CD-Scheme & explicit Visc) |
4178 |
|
o pkg gmredi, linear & fm07 tapering: put an upper limit on Slope^2 so that Kwz |
4179 |
|
does not become too large (to avoid precision problems in implicit-diffusion |
4180 |
|
solver); update ideal_2D_oce output. |
4181 |
|
o pkg ggl90: |
4182 |
|
- in ggl90_cal.F: compute only one set of visc/diff, used to |
4183 |
|
step forward TKE/T/S/momentum |
4184 |
|
- default value of GGL90viscMax/GGL90diffMax larger and equal (to |
4185 |
|
have Prandlt =1) |
4186 |
|
o gmredi (fm07): |
4187 |
|
- add lower limit on Transition layer thickness + lower limit on 1/lambda |
4188 |
|
- allow to set few more params from data.gmredi |
4189 |
|
o pkg ggl90: |
4190 |
|
- add missing sqrt(2) factor in computation of mixing length |
4191 |
|
scale in ggl90_calc.F |
4192 |
|
(see Eq. (2.35) in Blanke and Delecluse, JPO, 1993) |
4193 |
|
|
4194 |
|
checkpoint61d (2008/09/25) |
4195 |
|
o adjoint modifs |
4196 |
|
- adapt to new field rhoInSitu |
4197 |
|
- allow to revert from StoreDynVars2D, StoreDynVars3D |
4198 |
|
to individual fields |
4199 |
|
(switches AUTODIFF_USE_OLDSTORE_2D, AUTODIFF_USE_OLDSTORE_3D) |
4200 |
|
o store 3-D (in-situ) density in commom block (DYNVARS.h) |
4201 |
|
- save 1 rho computation. |
4202 |
|
- no longer modify T & S inland when using down_slope pkg. |
4203 |
|
o gad_som : allow to switch to SOM advection for T & S without corresponding |
4204 |
|
pickup files (using new S/R: MDS_CHECK4FILE). |
4205 |
|
o keep removing _BEGIN/_END_MASTER between MDSIO S/R call |
4206 |
|
(for useSingleCpuIO to work in multi-threaded) |
4207 |
|
o pkg/shelfice: |
4208 |
|
- disentangle parameters: retire shelfIceFile in data/PARM05 and substitute |
4209 |
|
with SHELFICEtopoFile in data.shelfice |
4210 |
|
- move code for reading ice shelf topography and modifying hFacC into separate |
4211 |
|
subroutines of the shelfice package |
4212 |
|
- separate initialisation of "fixed" and "variable" variables |
4213 |
|
- kTopC is not (yet) replaced by kSurfC, although this is possible |
4214 |
|
o fix broken diagnostic SIatmFW and changed the units from m/s to kg/m^2/s |
4215 |
|
o add initialisation of deepFac if using Pcoords (new S/R set_grid_factors) |
4216 |
|
and rename: |
4217 |
|
ini_phiref.F --> set_ref_state.F (+ set anelastic factors) |
4218 |
|
ini_reference_state.F --> load_ref_files.F (- set anelastic factors) |
4219 |
|
o change FIND_RHO_SCALAR : return rho (instead of rho - rhoConst) |
4220 |
|
|
4221 |
|
checkpoint61c (2008/08/30) |
4222 |
|
o add option ALLOW_ADDFLUID and run-time selector "selectAddFluid" |
4223 |
|
to add mass source/sink of fluid in the interior (3-D generalisation |
4224 |
|
of oceanic real-fresh water flux). |
4225 |
|
o pkg/monitor: fix recip_dr argument in mon_advcflw2 call (-> advcfl_W_hf_max) |
4226 |
|
o vermix test experiment: switch from LINEAR EOS to MDJWF (not tested before) |
4227 |
|
o new pkg: down_slope |
4228 |
|
density-driven downsloping flow parameterisation (Tellus, 1999, 412-430). |
4229 |
|
- presently, modify T & S inland (dwnslp_calc_rho.F). |
4230 |
|
can be avoided if rho was stored in common bloc and used in calc_phi_hyd. |
4231 |
|
- implementation for ocean in P-coords not tested. |
4232 |
|
- add secondary test to global_ocean.90x40x15 (input.dwnslp) to check this pkg. |
4233 |
|
o move kSurfC,kSurfW & kSurfS from SURFACE.h to GRID.h (next to kLowC) |
4234 |
|
(to facilitate conversion of oceanic pkg to p-coordinate). |
4235 |
|
o change FIND_RHO to FIND_RHO_2D : |
4236 |
|
pass arguments tFld & sFld as local (tile) 2D-arrays ; +fix EOS_CHECK. |
4237 |
|
o new pkg: cheapaml |
4238 |
|
|
4239 |
|
checkpoint61b (2008/08/05) |
4240 |
|
o exch2: |
4241 |
|
change index bounds in rx2_cube exchanges (new S/R: EXCH2_GET_UV_BOUNDS) |
4242 |
|
- no longer depend on the order sequence (N,S,E,W). |
4243 |
|
- 3rd exchange no longer needed (tested with 24 tiles). |
4244 |
|
- same modif to hand-written adjoint S/R (global_ocean.cs32x15: zero diff) |
4245 |
|
- exch_UV_A-grid readily available (but not yet tested). |
4246 |
|
comment out 3rd exch call and remove copy of V to U at SE & NE face-corners |
4247 |
|
(both are no longer needed) in exch_uv: no effect in forward run; but |
4248 |
|
get truncation error differences with adjoint exch. |
4249 |
|
o exch2: |
4250 |
|
- change index-bounds storage (moved from target to local tile, |
4251 |
|
more intuitive this way) ; rename/remove some variables. |
4252 |
|
- change utils/exch2/matlab-topology-generator & code_mods accordingly. |
4253 |
|
|
4254 |
|
checkpoint61a (2008/07/29) |
4255 |
|
o exch2/matlab-topology-generator: |
4256 |
|
fix bug in index bounds for N-S internal exchange (hard to tell if this |
4257 |
|
had any effect on the solution). |
4258 |
|
o pkg/mnc: small fix in mnc_handle_err: make sure that length of msgbuf |
4259 |
|
is exceeded |
4260 |
|
o testreport: modify syntax of awk, so that it works also with |
4261 |
|
awk, and not only with nawk and gawk |
4262 |
|
|
4263 |
|
checkpoint61 (2008/06/24) |
4264 |
|
o autodiff |
4265 |
|
Change default for TAF usage by removing argument '-nonew_arg' |
4266 |
|
This changes TAF subroutine argument list (ordering of active var.) |
4267 |
|
Omission of this flag leads to incompatibility w.r.t. TAMC |
4268 |
|
To restore TAMC-compatibility, need following modifs: |
4269 |
|
* use adoptfile tools/adjoint_options/adjoint_tamc_compatibility |
4270 |
|
* use CPP option #define AUTODIFF_TAMC_COMPATIBILITY |
4271 |
|
Tested TAF version is 1.9.22 |
4272 |
|
N.B.: exch2 hand-written adjoint code currently not TAMC compatible |
4273 |
|
|
4274 |
|
checkpoint60 (2008/06/19) |
4275 |
|
--->>> This is the last checkpoint for which generating the adjoint |
4276 |
|
--->>> is done via the TAMC-compatibility TAF-flag "-nonewarg" |
4277 |
|
--->>> by default. |
4278 |
|
--->>> Future checkpoints will ommit this flag by default. |
4279 |
|
o pkg/generic_advdiff, os7mp: simplify and avoid division by zero. |
4280 |
|
o pkg/grdchk: Add gradient check to etan0 perturbations. |
4281 |
|
o pkg/exf: read ice area from file (#ifdef ALLOW_ICE_AREAMASK). |
4282 |
|
o pkg/autodiff: more flexibility in zeroadj. |
4283 |
|
model/src: modifying do_oceanic_phys.F accordingly. |
4284 |
|
o pkg/ctrl: Bounds for (kapgm,kapredi,eddypsi) parameter estimation. |
4285 |
|
o model/src and pkg/gmredi: GMREDI_WITH_STABLE_ADJOINT CPP option |
4286 |
|
special setup of gmredi for which the adjoint is stable |
4287 |
|
enough for parameter optimization. |
4288 |
|
o bridging the gap between eddy stress and GM. |
4289 |
|
-> eddyTau is replaced with eddyPsi (eddyTau = f x rho0 x eddyPsi) |
4290 |
|
along with a change in CPP option (now ALLOW_EDDYPSI). |
4291 |
|
-> when using GM w/ GM_AdvForm: |
4292 |
|
The total eddy streamfunction (Psi = eddyPsi + K x Slope) |
4293 |
|
is applied either in the tracer Eq. or in momentum Eq. |
4294 |
|
depending on data.gmredi (intro. GM_InMomAsStress). |
4295 |
|
-> ALLOW_EDDYPSI_CONTROL for estimation purpose. |
4296 |
|
The key modifications are in model/src/taueddy_external_forcing.F |
4297 |
|
pkg/gmredi/gmredi_calc_*F pkg/gmredi/gmredi_*transport.F |
4298 |
|
|
4299 |
|
checkpoint59r (2008/05/29) |
4300 |
|
o new S/R (pkg/mdsio/mdsio_facef_read.F) reading of sNx+1 x sNy+1 array |
4301 |
|
from per-face file (take S/R READSYMTILE_RS out of ini_curvilinear_grid.F); |
4302 |
|
fix option to read coriolis(@ cell-corner) from files with CS-grid. |
4303 |
|
o pkg/mnc: add some attributes to standard 1D-coordinate variables |
4304 |
|
o pkg/diagnostics: enforce missing_value attribute for scalar variables at |
4305 |
|
mass points, when using mnc for output |
4306 |
|
- add runtime parameter (missing_value, missing_value_int) to override |
4307 |
|
default (which is the value of getcon('UNDEF')) |
4308 |
|
o pkg/mnc: prepare mnc for the actual use of missing values with the |
4309 |
|
diagnostics package: small fix in mnc_cw_readwrite.template and more |
4310 |
|
initialisation of never used fields |
4311 |
|
- replace mnc_common.h and mnc_id_header.h with corresponding upper case |
4312 |
|
versions |
4313 |
|
o pkg/thsice/thsice_ini_vars.F added default initial values so that |
4314 |
|
thermodynamics sea ice solver does not blow up when some initial fields |
4315 |
|
are missing. |
4316 |
|
o move from external_forcing_surf.F to ini_forcing.F |
4317 |
|
the p-coord. hack consisting in using pLoad to set phi0surf ; |
4318 |
|
update output of tutorial_global_oce_in_p (affected @ truncation level). |
4319 |
|
o Freshen up a bit hs94.1x64x5, notably: |
4320 |
|
remove rotationPeriod and tRef=5*0. (adjoint only), and add |
4321 |
|
exactConserv=.TRUE. |
4322 |
|
o pkg/generic_advdiff: |
4323 |
|
change option GAD_ALLOW_SOM_ADVECT to GAD_ALLOW_TS_SOM_ADV which only |
4324 |
|
applies to files where Temperature & Salinity 2nd Order moments are used. |
4325 |
|
o pkg/ptracers: add second-order moment advection schemes (80 and 81); |
4326 |
|
this uses a dynamically allocated internal state data structure |
4327 |
|
(#define PTRACERS_ALLOW_DYN_STATE in PTRACERS_OPTIONS.h) |
4328 |
|
and requires a fortran 90 compiler |
4329 |
|
|
4330 |
|
checkpoint59q (2008/05/06) |
4331 |
|
o pkg/mom_vecinv: Add energy & enstrophy conserving scheme (selectVortScheme=3) |
4332 |
|
(from Sadourny, described by Burridge & Haseler, ECMWF Rep.4, 1977) |
4333 |
|
o Refresh tutorial_global_oce_biogeo, notably: |
4334 |
|
- change bathymetry (put back seamounts in ACC, use hFacs) |
4335 |
|
- change EOS (POLY3 --> JMD95Z) |
4336 |
|
- use Bryan-Lewis vertical diffusivity |
4337 |
|
- use multidimensional advection |
4338 |
|
- remove old virtual virtual in dic pkg, now done through ptracer pkg |
4339 |
|
- change a couple of parameters in dic pkg |
4340 |
o pkg/ctrl: change formula in adctrl_bound.F and add a parameter to ctrl_map_ini_gen.F |
o pkg/ctrl: change formula in adctrl_bound.F and add a parameter to ctrl_map_ini_gen.F |
4341 |
o pkg/obcs: change default to OBCSfixTopo = .true., |
o pkg/obcs: change default to OBCSfixTopo = .true., |
4342 |
- set OBCSfixTopo=.false. in exp4/input/data.obcs to reproduce old result |
- set OBCSfixTopo=.false. in exp4/input/data.obcs to reproduce old result |
4362 |
- Parameter rhowi eliminated to be replaced by floodFac = (rhosw-rhoi)/rhos |
- Parameter rhowi eliminated to be replaced by floodFac = (rhosw-rhoi)/rhos |
4363 |
--> changes results of global_ocean.cs32x15.icedyn and global_ocean.cs32x15.thsice |
--> changes results of global_ocean.cs32x15.icedyn and global_ocean.cs32x15.thsice |
4364 |
|
|
4365 |
checkpoint59p |
checkpoint59p (2008/04/10) |
4366 |
o gchem / dic / cfc : |
o gchem / dic / cfc : |
4367 |
- add useDIC, useCFC , read from "data.gchem" (& hold in GCHEM.h); |
- add useDIC, useCFC , read from "data.gchem" (& hold in GCHEM.h); |
4368 |
- add new parameter files: "data.dic" & "data.cfc" ; |
- add new parameter files: "data.dic" & "data.cfc" ; |
4388 |
bottom ; only used with variable horizontal viscosity and non-hydrostatic. |
bottom ; only used with variable horizontal viscosity and non-hydrostatic. |
4389 |
also fix diagnostics VISCAHW & VISCA4W. |
also fix diagnostics VISCAHW & VISCA4W. |
4390 |
|
|
4391 |
checkpoint59o |
checkpoint59o (2008/03/07) |
4392 |
o dome/code/obcs_calc.F: avoid division by zero (detected using gfortran). |
o dome/code/obcs_calc.F: avoid division by zero (detected using gfortran). |
4393 |
o change the loop ordering in most gad_*_adv_x.F to improve vectorization: |
o change the loop ordering in most gad_*_adv_x.F to improve vectorization: |
4394 |
move a few statemens out the main loop into separate loops |
move a few statemens out the main loop into separate loops |
4429 |
introducing a generic routine (ctrl_map_ini_gen.F). |
introducing a generic routine (ctrl_map_ini_gen.F). |
4430 |
- Modification of ctrl_bound/adctrl_bound handling control vector bounds. |
- Modification of ctrl_bound/adctrl_bound handling control vector bounds. |
4431 |
|
|
4432 |
checkpoint59n |
checkpoint59n (2008/02/09) |
4433 |
o pkg/diagnostics: for large number of diagnostics, store diagnostic mate |
o pkg/diagnostics: for large number of diagnostics, store diagnostic mate |
4434 |
number in dedicate array "hdiag": |
number in dedicate array "hdiag": |
4435 |
- new version of S/R DIAGNOSTICS_ADD2LIST : DIAGNOSTICS_ADDTOLIST |
- new version of S/R DIAGNOSTICS_ADD2LIST : DIAGNOSTICS_ADDTOLIST |
4483 |
for now this is only available for the C-grid code and also within |
for now this is only available for the C-grid code and also within |
4484 |
#ifdef SEAICE_ALLOW_TEM, because this option may slow down the EVP code |
#ifdef SEAICE_ALLOW_TEM, because this option may slow down the EVP code |
4485 |
|
|
4486 |
checkpoint59m |
checkpoint59m (2008/01/14) |
4487 |
o pkg/seaice: use different time constant for melting (SEAICE_gamma_t) |
o pkg/seaice: use different time constant for melting (SEAICE_gamma_t) |
4488 |
and freezing (SEAICE_gamma_t_frz) ice due to mixed layer temperature |
and freezing (SEAICE_gamma_t_frz) ice due to mixed layer temperature |
4489 |
o gad_som : fix flux output (& diagnostics) to have same units as other |
o gad_som : fix flux output (& diagnostics) to have same units as other |
4501 |
o pkg/salt_plume: added various options for salt plume depth |
o pkg/salt_plume: added various options for salt plume depth |
4502 |
criterion and for vertical distribution of the salt |
criterion and for vertical distribution of the salt |
4503 |
|
|
4504 |
checkpoint59l |
checkpoint59l (2007/12/18) |
4505 |
o pkg/ptracers: new version of ptracers pickup: |
o pkg/ptracers: new version of ptracers pickup: |
4506 |
read meta file and write only fields which are needed to restart. |
read meta file and write only fields which are needed to restart. |
4507 |
( same logic as main pickup file ; also using pickupStrictlyMatch ) |
( same logic as main pickup file ; also using pickupStrictlyMatch ) |
4523 |
o pkg/exf: added useRelativeWind EXF_PARAM.h option for subtracting U/VVEL |
o pkg/exf: added useRelativeWind EXF_PARAM.h option for subtracting U/VVEL |
4524 |
or U/VICE from U/VWIND before computing U/VSTRESS |
or U/VICE from U/VWIND before computing U/VSTRESS |
4525 |
|
|
4526 |
checkpoint59k |
checkpoint59k (2007/11/30) |
4527 |
o pkg/seaice: ICE2WATR=SEAICE_rhoIce/rhoConst for consistency between |
o pkg/seaice: ICE2WATR=SEAICE_rhoIce/rhoConst for consistency between |
4528 |
dynamics and thermodynamics. Set ICE2WATR=0.92 to reproduce older results. |
dynamics and thermodynamics. Set ICE2WATR=0.92 to reproduce older results. |
4529 |
o fix un-initialised variable problem (in mom_vecinv & shap_filt): |
o fix un-initialised variable problem (in mom_vecinv & shap_filt): |
4545 |
use a 2 characters string ioLabel to identify tracer (if more than 99 tracers). |
use a 2 characters string ioLabel to identify tracer (if more than 99 tracers). |
4546 |
to-do: fix pkg/diagnostics when large number of diagnostics are defined. |
to-do: fix pkg/diagnostics when large number of diagnostics are defined. |
4547 |
|
|
4548 |
checkpoint59j |
checkpoint59j (2007/11/09) |
4549 |
o in pkgs: dic, obcs, offline, rbcs: |
o in pkgs: dic, obcs, offline, rbcs: |
4550 |
standard way to compute coeff. for time interpolation between 2 time reccords |
standard way to compute coeff. for time interpolation between 2 time reccords |
4551 |
which retains full precision (& make results less dependent on compiler). |
which retains full precision (& make results less dependent on compiler). |
4588 |
o added open boundary conditions capability for seaice |
o added open boundary conditions capability for seaice |
4589 |
HSNOW, HSALT, UICE, and VICE |
HSNOW, HSALT, UICE, and VICE |
4590 |
|
|
4591 |
checkpoint59i |
checkpoint59i (2007/10/21) |
4592 |
o adjoint: |
o adjoint: |
4593 |
* fix multiDimAdvection adjoint |
* fix multiDimAdvection adjoint |
4594 |
(partial recomputation problem by TAF for fVerT(:,:,kDown) |
(partial recomputation problem by TAF for fVerT(:,:,kDown) |
4629 |
Coupled set-up: allow to restart from previous pickups (cpl_oldPickup=T). |
Coupled set-up: allow to restart from previous pickups (cpl_oldPickup=T). |
4630 |
Next: will retire convertEmP2rUnit (simply using mass2rUnit instead). |
Next: will retire convertEmP2rUnit (simply using mass2rUnit instead). |
4631 |
|
|
4632 |
checkpoint59h |
checkpoint59h (2007/09/29) |
4633 |
o pkg/exf: |
o pkg/exf: |
4634 |
- improve vectorization by moving if-statement out of loops in |
- improve vectorization by moving if-statement out of loops in |
4635 |
exf_mapfields, exf_radiation |
exf_mapfields, exf_radiation |
4662 |
o testreport: change AD testing : check against results/output_adm.txt |
o testreport: change AD testing : check against results/output_adm.txt |
4663 |
using same scripts as for forward test. |
using same scripts as for forward test. |
4664 |
|
|
4665 |
checkpoint59g |
checkpoint59g (2007/09/17) |
4666 |
o adjoint testing: in preparation for changing testreport: |
o adjoint testing: in preparation for changing testreport: |
4667 |
- output format: cost and grad written on separated lines |
- output format: cost and grad written on separated lines |
4668 |
- ad output results in directory "results" (instead of "results_ad") |
- ad output results in directory "results" (instead of "results_ad") |
4707 |
global_ocean.90x40x15 (fw&adm), lab_sea (fw&adm) & lab_sea.lsr, |
global_ocean.90x40x15 (fw&adm), lab_sea (fw&adm) & lab_sea.lsr, |
4708 |
ideal_2D_oce, isomip.htd, natl_box, tutorial_global_oce_latlon. |
ideal_2D_oce, isomip.htd, natl_box, tutorial_global_oce_latlon. |
4709 |
|
|
4710 |
checkpoint59f |
checkpoint59f (2007/08/21) |
4711 |
o pkg/autodiff: zero_adj resets an ajoint variable to zero (in adjoint mode) |
o pkg/autodiff: zero_adj resets an ajoint variable to zero (in adjoint mode) |
4712 |
o pkg/ctrl: ctrl_bound forces parameter corrections to stay in |
o pkg/ctrl: ctrl_bound forces parameter corrections to stay in |
4713 |
a bounded range (in forward mode) |
a bounded range (in forward mode) |
4738 |
o pkg/bulk_force: fix loading into Qsw of Short-Wave flux; and update |
o pkg/bulk_force: fix loading into Qsw of Short-Wave flux; and update |
4739 |
output of global_ocean.cs32x15.thsice . |
output of global_ocean.cs32x15.thsice . |
4740 |
|
|
4741 |
checkpoint59e |
checkpoint59e (2007/07/26) |
4742 |
o exch2: new S/R that only use the cube-tracer (center-position) exchange: |
o exch2: new S/R that only use the cube-tracer (center-position) exchange: |
4743 |
for B-grid vector (not yet tested) and C-grid vector (<- only used |
for B-grid vector (not yet tested) and C-grid vector (<- only used |
4744 |
when option W2_USE_R1_ONLY in W2_OPTIONS.h is defined). |
when option W2_USE_R1_ONLY in W2_OPTIONS.h is defined). |
4768 |
* reintroduced cap of HEFF via MAX_HEFF and SEAICE_CAP_HEFF option |
* reintroduced cap of HEFF via MAX_HEFF and SEAICE_CAP_HEFF option |
4769 |
* applied OBCS T/S mask to HEFFM sea ice mask |
* applied OBCS T/S mask to HEFFM sea ice mask |
4770 |
|
|
4771 |
checkpoint59d |
checkpoint59d (2007/06/21) |
4772 |
o standard name: {PKG}_DIAGNOSTICS_STATE to fill diagnostics array |
o standard name: {PKG}_DIAGNOSTICS_STATE to fill diagnostics array |
4773 |
for {PKG} state variables, and called from DO_STATEVARS_DIAGS. |
for {PKG} state variables, and called from DO_STATEVARS_DIAGS. |
4774 |
(keep {PKG}_DIAGNOSTICS_FILL for non-state variables diagnostics) |
(keep {PKG}_DIAGNOSTICS_FILL for non-state variables diagnostics) |
4814 |
It is turned off by default (=-1.), because it changes the results. |
It is turned off by default (=-1.), because it changes the results. |
4815 |
- make it possible to read AREA from a file, too. |
- make it possible to read AREA from a file, too. |
4816 |
|
|
4817 |
checkpoint59c |
checkpoint59c (2007/06/04) |
4818 |
o add S/R and diagnostics for oceanic mixed-layer depth |
o add S/R and diagnostics for oceanic mixed-layer depth |
4819 |
o move GMRedi call after all vertical mixing schemes (including KPP) |
o move GMRedi call after all vertical mixing schemes (including KPP) |
4820 |
o pkg/thsice: |
o pkg/thsice: |
4847 |
Storing is now bundled into large arrays to optimized I/O |
Storing is now bundled into large arrays to optimized I/O |
4848 |
(and second step in cleanup of the_main_loop) |
(and second step in cleanup of the_main_loop) |
4849 |
|
|
4850 |
checkpoint59b |
checkpoint59b (2007/05/16) |
4851 |
o coupler (pkg/atm_ocn_coupler, pkg/ocn_compon_interf, pkg/atm2d): |
o coupler (pkg/atm_ocn_coupler, pkg/ocn_compon_interf, pkg/atm2d): |
4852 |
- export/import (between ocean & coupler) fields needed for ocean DIC. |
- export/import (between ocean & coupler) fields needed for ocean DIC. |
4853 |
o pkg/seaice: |
o pkg/seaice: |
4918 |
o OpenAD |
o OpenAD |
4919 |
- changed verification/OpenAD to full baroclinic setup (including GM/Redi) |
- changed verification/OpenAD to full baroclinic setup (including GM/Redi) |
4920 |
|
|
4921 |
checkpoint59a |
checkpoint59a (2007/05/01) |
4922 |
o pkg/seaice: some parameter clarifications and a little bit of clean up |
o pkg/seaice: some parameter clarifications and a little bit of clean up |
4923 |
o pkg/thsice: rename run-time parameters: |
o pkg/thsice: rename run-time parameters: |
4924 |
himin -> hIceMin |
himin -> hIceMin |
4960 |
o pkg/kpp: add code to have mixing in shelf ice caverns |
o pkg/kpp: add code to have mixing in shelf ice caverns |
4961 |
- add myThid to all kpp routines (long overdue) |
- add myThid to all kpp routines (long overdue) |
4962 |
|
|
4963 |
checkpoint59 |
checkpoint59 (2007/04/19) |
4964 |
o pkg/exf: |
o pkg/exf: |
4965 |
- fix wind-stress location: defined on A-grid (if ALLOW_ATM_WIND & |
- fix wind-stress location: defined on A-grid (if ALLOW_ATM_WIND & |
4966 |
ALLOW_BULKFORMULAE or USE_EXF_INTERPOLATION), otherwise, defined on C-grid |
ALLOW_BULKFORMULAE or USE_EXF_INTERPOLATION), otherwise, defined on C-grid |
4986 |
- 2nd set of modifs for thsice adjoint in conjunction with exf |
- 2nd set of modifs for thsice adjoint in conjunction with exf |
4987 |
o enable runtime flag useEXF (useCAL is set to .T. if useEXF=.T.) |
o enable runtime flag useEXF (useCAL is set to .T. if useEXF=.T.) |
4988 |
|
|
4989 |
checkpoint58y_post |
checkpoint58y_post (2007/04/15) |
4990 |
o Added capability for latitudinal dependence of Bryan and Lewis, 1979 |
o Added capability for latitudinal dependence of Bryan and Lewis, 1979 |
4991 |
vertical diffusivity, similar to that in MOM4; turned on using |
vertical diffusivity, similar to that in MOM4; turned on using |
4992 |
#define ALLOW_BL79_LAT_VARY in CPP_OPTIONS.h and specified using |
#define ALLOW_BL79_LAT_VARY in CPP_OPTIONS.h and specified using |
5002 |
- better when using non-linear advection scheme (not yet fully tested) |
- better when using non-linear advection scheme (not yet fully tested) |
5003 |
- can also be used in atmospheric set-up (for now, only the diffusion). |
- can also be used in atmospheric set-up (for now, only the diffusion). |
5004 |
|
|
5005 |
checkpoint58x_post |
checkpoint58x_post (2007/04/04) |
5006 |
o IO option for global-file compact format: |
o IO option for global-file compact format: |
5007 |
- add options when generating topology (utils/exch2/matlab-topology-generator) |
- add options when generating topology (utils/exch2/matlab-topology-generator) |
5008 |
- add I/O capability (pkg/mdsio). |
- add I/O capability (pkg/mdsio). |
5010 |
for now long-line format not yet supported by pkg/mdsio (& exch2). |
for now long-line format not yet supported by pkg/mdsio (& exch2). |
5011 |
o shelfice: add a few diagnostics |
o shelfice: add a few diagnostics |
5012 |
|
|
5013 |
checkpoint58w_post |
checkpoint58w_post (2007/03/13) |
5014 |
o p-coord. non-hydrostatic using reference profile for w <-> omega conversion: |
o p-coord. non-hydrostatic using reference profile for w <-> omega conversion: |
5015 |
rVel2wUnit & wUnit2rVel are computed from reference profile Tref,Sref |
rVel2wUnit & wUnit2rVel are computed from reference profile Tref,Sref |
5016 |
(and replace horiVertRatio in NH code). |
(and replace horiVertRatio in NH code). |
5031 |
o move call to cal_readparms up to make calendar parameters/variable available |
o move call to cal_readparms up to make calendar parameters/variable available |
5032 |
to all packages |
to all packages |
5033 |
|
|
5034 |
checkpoint58v_post |
checkpoint58v_post (2007/02/08) |
5035 |
o change EOS (from POLY3 to JMD95P) in global_ocean.90x45x15 to get |
o change EOS (from POLY3 to JMD95P) in global_ocean.90x45x15 to get |
5036 |
useDynP_inEos_Zc tested. |
useDynP_inEos_Zc tested. |
5037 |
o pkg/exf: changes to properly interpolate/mask/scale initial fields |
o pkg/exf: changes to properly interpolate/mask/scale initial fields |
5050 |
- use this scheme for temperature & salinity in 2 advection test exp.: |
- use this scheme for temperature & salinity in 2 advection test exp.: |
5051 |
advect_xy & advect_xz, respectively. |
advect_xy & advect_xz, respectively. |
5052 |
|
|
5053 |
checkpoint58u_post |
checkpoint58u_post (2007/01/12) |
5054 |
o new test-exp: fizhi-cs-32x32x40 (40 levels) to replace the 10 levels. |
o new test-exp: fizhi-cs-32x32x40 (40 levels) to replace the 10 levels. |
5055 |
o move call to INI_FORCING from PACKAGES_INIT_VARIABLES to INITIALISE_VARIA. |
o move call to INI_FORCING from PACKAGES_INIT_VARIABLES to INITIALISE_VARIA. |
5056 |
o testreport: add option "-skipdir" to skip some test. |
o testreport: add option "-skipdir" to skip some test. |
5065 |
o pkg/seaice: fix a bug in the flooding algorithm: turn off the snow machine |
o pkg/seaice: fix a bug in the flooding algorithm: turn off the snow machine |
5066 |
o pkg/thsice: fix reading mnc-pickups |
o pkg/thsice: fix reading mnc-pickups |
5067 |
|
|
5068 |
checkpoint58t_post |
checkpoint58t_post (2006/12/30) |
5069 |
o pkg/diagnostics: fix multi-threaded output (when singleCpuIO=F) |
o pkg/diagnostics: fix multi-threaded output (when singleCpuIO=F) |
5070 |
o pkg/mdsio: |
o pkg/mdsio: |
5071 |
- clean-up mdsio_readfield.F & mdsio_writefield_new.F and |
- clean-up mdsio_readfield.F & mdsio_writefield_new.F and |
5108 |
- introduce a few local fields to avoid modifying external fields such |
- introduce a few local fields to avoid modifying external fields such |
5109 |
as atemp, etc. |
as atemp, etc. |
5110 |
|
|
5111 |
checkpoint58s_post |
checkpoint58s_post (2006/12/11) |
5112 |
o pkg/exf: moved exf_init_runoff.F to exf_init.F and exf_set_gen.F |
o pkg/exf: moved exf_init_runoff.F to exf_init.F and exf_set_gen.F |
5113 |
changed exf_set_gen.F so that |
changed exf_set_gen.F so that |
5114 |
genperiod=0 means input file is one time-constant field and |
genperiod=0 means input file is one time-constant field and |
5142 |
as actual snow thickness. It now refers everywhere to effective snow |
as actual snow thickness. It now refers everywhere to effective snow |
5143 |
thickness, meaning that for non-zero AREA, actual thickness is HEFF/AREA. |
thickness, meaning that for non-zero AREA, actual thickness is HEFF/AREA. |
5144 |
|
|
5145 |
checkpoint58r_post |
checkpoint58r_post (2006/11/17) |
5146 |
o modifications to pkg/seaice/growth.F, which change results of |
o modifications to pkg/seaice/growth.F, which change results of |
5147 |
lab_sea experiment: fixes pertain to melting snow over open water, to |
lab_sea experiment: fixes pertain to melting snow over open water, to |
5148 |
masking EVAP under sea ice, and to using the correct AREA variable for |
masking EVAP under sea ice, and to using the correct AREA variable for |
5166 |
o ctrl: adding new control variables: |
o ctrl: adding new control variables: |
5167 |
lwflux, lwdown, evap, snowprecip, apressure, runoff |
lwflux, lwdown, evap, snowprecip, apressure, runoff |
5168 |
|
|
5169 |
checkpoint58q_post |
checkpoint58q_post (2006/10/20) |
5170 |
o added CPP_EEOPTIONS.h flag DISABLE_MPI_READY_TO_RECEIVE. Speeds up |
o added CPP_EEOPTIONS.h flag DISABLE_MPI_READY_TO_RECEIVE. Speeds up |
5171 |
1/6-deg Southern Ocean configuration by 8% on IBM Datastar and |
1/6-deg Southern Ocean configuration by 8% on IBM Datastar and |
5172 |
high_res_cube configuration by 4% on Columbia. |
high_res_cube configuration by 4% on Columbia. |
5177 |
single CPU io) so that TAF does not have to see EESUPPORT.h |
single CPU io) so that TAF does not have to see EESUPPORT.h |
5178 |
o pkg/seaice: implement sea-ice loading (when using RealFreshWaterFlux) |
o pkg/seaice: implement sea-ice loading (when using RealFreshWaterFlux) |
5179 |
|
|
5180 |
checkpoint58p_post |
checkpoint58p_post (2006/09/08) |
5181 |
o obcs: stop if obcs is used with useCDscheme = .true. |
o obcs: stop if obcs is used with useCDscheme = .true. |
5182 |
o shelfice: |
o shelfice: |
5183 |
- fix a sign error so that no slip at shelfice interface works |
- fix a sign error so that no slip at shelfice interface works |
5188 |
o added adjoint exch routined for all exch*3d* routines |
o added adjoint exch routined for all exch*3d* routines |
5189 |
and updated flow directives |
and updated flow directives |
5190 |
|
|
5191 |
checkpoint58o_post |
checkpoint58o_post (2006/08/28) |
5192 |
o replace calls to EXCH_Z & EXCH_UV_AGRID: use the new _3D_ version ; |
o replace calls to EXCH_Z & EXCH_UV_AGRID: use the new _3D_ version ; |
5193 |
remove old subroutines (_XY_ & _XYZ_); update the adjoint version. |
remove old subroutines (_XY_ & _XYZ_); update the adjoint version. |
5194 |
o change controling S/R for writing pickup file (new S/R do_write_pickup) |
o change controling S/R for writing pickup file (new S/R do_write_pickup) |
5202 |
- add a simple boundary layer scheme to reduce noise |
- add a simple boundary layer scheme to reduce noise |
5203 |
- fix the indexing in shelfice_u/v_drag so that there will be actually drag |
- fix the indexing in shelfice_u/v_drag so that there will be actually drag |
5204 |
|
|
5205 |
checkpoint58n_post |
checkpoint58n_post (2006/08/14) |
5206 |
o fix globalArea multi-threaded calculation: need to apply GLOBAL_SUM to |
o fix globalArea multi-threaded calculation: need to apply GLOBAL_SUM to |
5207 |
local variable (not in common block). |
local variable (not in common block). |
5208 |
o lot of small changes for multi-threaded. Most tests (using OMP & ifort) pass. |
o lot of small changes for multi-threaded. Most tests (using OMP & ifort) pass. |
5223 |
and stop cleanly when MAX_NO_THREADS is too small. |
and stop cleanly when MAX_NO_THREADS is too small. |
5224 |
o add S/R BAR_CHECK to check multi-threaded barrier synchronization |
o add S/R BAR_CHECK to check multi-threaded barrier synchronization |
5225 |
|
|
5226 |
checkpoint58m_post |
checkpoint58m_post (2006/07/17) |
5227 |
o add a Non-Hydroatatic test (with 3-D Coriolis, NHMTerms, biharmonic Visc. |
o add a Non-Hydroatatic test (with 3-D Coriolis, NHMTerms, biharmonic Visc. |
5228 |
and side-drag) on CS-grid : global_ocean.cs32x15.viscA4 |
and side-drag) on CS-grid : global_ocean.cs32x15.viscA4 |
5229 |
o make "tutorial_global_oce_latlon" from standard "global_ocean.90x40x15" exp. |
o make "tutorial_global_oce_latlon" from standard "global_ocean.90x40x15" exp. |
5249 |
update rotating_tank results, but not plume_on_slope (affected at |
update rotating_tank results, but not plume_on_slope (affected at |
5250 |
truncation level, 11 digits). |
truncation level, 11 digits). |
5251 |
|
|
5252 |
checkpoint58l_post |
checkpoint58l_post (2006/07/12) |
5253 |
o calc_gw: |
o calc_gw: |
5254 |
- take bi,bj loops outside calc_gw to fix Pb with local array KappaRU,V |
- take bi,bj loops outside calc_gw to fix Pb with local array KappaRU,V |
5255 |
- remove side-drag for now (need to fix it); update plume_on_slope results. |
- remove side-drag for now (need to fix it); update plume_on_slope results. |
5267 |
o pkg/rbcs |
o pkg/rbcs |
5268 |
* add all necessary infrastructure for pkg/rbcs levN adjoint checkpointing |
* add all necessary infrastructure for pkg/rbcs levN adjoint checkpointing |
5269 |
|
|
5270 |
checkpoint58k_post |
checkpoint58k_post (2006/07/06) |
5271 |
o testreport: |
o testreport: |
5272 |
- always build in dir. "build" (if not there, mkdir build instead of building |
- always build in dir. "build" (if not there, mkdir build instead of building |
5273 |
& running in input) |
& running in input) |
5300 |
advection subroutine (but still not used within DST advection S/R) |
advection subroutine (but still not used within DST advection S/R) |
5301 |
o rename pkg aim_ocn_coupler to atm_ocn_coupler (later on, will be used without aim) |
o rename pkg aim_ocn_coupler to atm_ocn_coupler (later on, will be used without aim) |
5302 |
|
|
5303 |
checkpoint58j_post |
checkpoint58j_post (2006/06/15) |
5304 |
o new driver S/R: LOAD_FIELDS_DRIVER to load external forcing fields |
o new driver S/R: LOAD_FIELDS_DRIVER to load external forcing fields |
5305 |
from file (collects calls previously in FORWARD_STEP) |
from file (collects calls previously in FORWARD_STEP) |
5306 |
o move call to SEAICE_MODEL from FORWARD_STEP to DO_OCEANIC_PHYS |
o move call to SEAICE_MODEL from FORWARD_STEP to DO_OCEANIC_PHYS |
5308 |
o genmake2 |
o genmake2 |
5309 |
replace target "ad_taf" by $(EXE_AD) ; add $(EXE_AD) to the make CLEAN list. |
replace target "ad_taf" by $(EXE_AD) ; add $(EXE_AD) to the make CLEAN list. |
5310 |
|
|
5311 |
checkpoint58i_post |
checkpoint58i_post (2006/06/14) |
5312 |
o pkg/seaice: add parameter that allows to scale/turn off effect of seaice |
o pkg/seaice: add parameter that allows to scale/turn off effect of seaice |
5313 |
on wind stress (SEAICEstressFactor defaults to 1.) |
on wind stress (SEAICEstressFactor defaults to 1.) |
5314 |
o Total number of Timers is finite (<=40): comment out 2 non-essential one |
o Total number of Timers is finite (<=40): comment out 2 non-essential one |
5322 |
non-EVP pickup files when using SEAICEuseEVP |
non-EVP pickup files when using SEAICEuseEVP |
5323 |
- fix sign error in diffusion in seaice_calc_rhs |
- fix sign error in diffusion in seaice_calc_rhs |
5324 |
|
|
5325 |
checkpoint58h_post |
checkpoint58h_post (2006/06/07) |
5326 |
* Modifications for bottom topography control |
* Modifications for bottom topography control |
5327 |
o replace hFacC by _hFacC at various places |
o replace hFacC by _hFacC at various places |
5328 |
o replace ALLOW_HFACC_CONTROL by ALLOW_DEPTH_CONTROL |
o replace ALLOW_HFACC_CONTROL by ALLOW_DEPTH_CONTROL |
5332 |
o works for 5x5 box, doesnt work for global_ocean.90x40x15 |
o works for 5x5 box, doesnt work for global_ocean.90x40x15 |
5333 |
* Adding verification for 5x5 box (4-layer) bottom topography control |
* Adding verification for 5x5 box (4-layer) bottom topography control |
5334 |
|
|
5335 |
checkpoint58g_post |
checkpoint58g_post (2006/06/07) |
5336 |
o pkg/diagnostics: implement "periodic averaging diagnostics" (e.g., |
o pkg/diagnostics: implement "periodic averaging diagnostics" (e.g., |
5337 |
used for mean seasonal cycle, mean diurnal cycle); add an example |
used for mean seasonal cycle, mean diurnal cycle); add an example |
5338 |
in verification/global_ocean.cs32x15/input.thsice/data.diagnostics |
in verification/global_ocean.cs32x15/input.thsice/data.diagnostics |
5348 |
o pkg/seaice |
o pkg/seaice |
5349 |
- make (default) second order advection a bit less confusing? |
- make (default) second order advection a bit less confusing? |
5350 |
|
|
5351 |
checkpoint58f_post |
checkpoint58f_post (2006/06/05) |
5352 |
o couple pkg/thsice and pkg/exf (as a preparation for coupling pkg/thsice |
o couple pkg/thsice and pkg/exf (as a preparation for coupling pkg/thsice |
5353 |
to pkg/seaice): |
to pkg/seaice): |
5354 |
- new routines thsice_map_exf and thsice_get_exf provide the interface |
- new routines thsice_map_exf and thsice_get_exf provide the interface |
5379 |
o results_ad : rename "output.txt_adm" to "output_adm.txt" and change |
o results_ad : rename "output.txt_adm" to "output_adm.txt" and change |
5380 |
testreport accordingly |
testreport accordingly |
5381 |
|
|
5382 |
checkpoint58e_post |
checkpoint58e_post (2006/05/17) |
5383 |
o SEAICE_CGRID adjoint done |
o SEAICE_CGRID adjoint done |
5384 |
o R_STAR adjoint implemented. |
o R_STAR adjoint implemented. |
5385 |
* Seems to just work (based on global_ocean.90x40x15/code_ad_nlfs/ ) |
* Seems to just work (based on global_ocean.90x40x15/code_ad_nlfs/ ) |
5387 |
o Make pkg/profile fully independent of ecco,cost, etc. stuff |
o Make pkg/profile fully independent of ecco,cost, etc. stuff |
5388 |
to be able to use it in pure forward. |
to be able to use it in pure forward. |
5389 |
|
|
5390 |
checkpoint58d_post |
checkpoint58d_post (2006/04/21) |
5391 |
o upgrade simple test-experiment to tutorial example: |
o upgrade simple test-experiment to tutorial example: |
5392 |
step.1: duplicate the experiment and (step.2) will remove the old copy. |
step.1: duplicate the experiment and (step.2) will remove the old copy. |
5393 |
tutorial_barotropic_gyre <- copy of exp0 (R1:barotropic_gyre_in_a_box) |
tutorial_barotropic_gyre <- copy of exp0 (R1:barotropic_gyre_in_a_box) |
5427 |
o Benign bug fix in initialization (spotted by M. Mazloff) of |
o Benign bug fix in initialization (spotted by M. Mazloff) of |
5428 |
ctrl_set_globfld_xz.F ctrl_set_globfld_yz.F |
ctrl_set_globfld_xz.F ctrl_set_globfld_yz.F |
5429 |
|
|
5430 |
checkpoint58c_post |
checkpoint58c_post (2006/03/23) |
5431 |
o adjoint: finish NLFS adjoint and provide reference output in |
o adjoint: finish NLFS adjoint and provide reference output in |
5432 |
verification/global_ocean.90x40x15/results_ad_nlfs |
verification/global_ocean.90x40x15/results_ad_nlfs |
5433 |
o seaice: add an EVP solver following Hunke and Dukowicz (1997) and the |
o seaice: add an EVP solver following Hunke and Dukowicz (1997) and the |
5461 |
+ move computation of the viscosities eta and zeta into a new separate |
+ move computation of the viscosities eta and zeta into a new separate |
5462 |
routine (because I need to recompute them in seaice_ocean_stress.F) |
routine (because I need to recompute them in seaice_ocean_stress.F) |
5463 |
|
|
5464 |
checkpoint58b_post |
checkpoint58b_post (2006/03/13) |
5465 |
o AIM+thSIce: fix sign of Short-Wave through the Ice ; |
o AIM+thSIce: fix sign of Short-Wave through the Ice ; |
5466 |
update output.txt of exp. aim.5l_cs.thSI |
update output.txt of exp. aim.5l_cs.thSI |
5467 |
o various mnc cleanups and improvements: |
o various mnc cleanups and improvements: |
5524 |
(turn on with SEAICEuseFluxForm) |
(turn on with SEAICEuseFluxForm) |
5525 |
- replace 1 in 3d global fields by kSurface in growth.F |
- replace 1 in 3d global fields by kSurface in growth.F |
5526 |
|
|
5527 |
checkpoint58a_post |
checkpoint58a_post (2006/02/13) |
5528 |
o seaice: |
o seaice: |
5529 |
- bug fix in advect.F |
- bug fix in advect.F |
5530 |
o shelfice: |
o shelfice: |
5577 |
and parameters (note: calcWindStress replaces .NOT.readwindstress). |
and parameters (note: calcWindStress replaces .NOT.readwindstress). |
5578 |
- cleaner interface with pkg/thSIce (new S/R THSICE_GET_PRECIP). |
- cleaner interface with pkg/thSIce (new S/R THSICE_GET_PRECIP). |
5579 |
|
|
5580 |
checkpoint58 |
checkpoint58 (2006/01/12) |
5581 |
o add "--embed-source" option to genmake2 which, when the supporting |
o add "--embed-source" option to genmake2 which, when the supporting |
5582 |
tools can be compiled (as determined by genmake2) will turn on the |
tools can be compiled (as determined by genmake2) will turn on the |
5583 |
embed_files package which then embeds the entire MITgcm source code |
embed_files package which then embeds the entire MITgcm source code |
5590 |
* Remove 3-dim. relaxation code from pkg/exf (now use only pkg/rbcs) |
* Remove 3-dim. relaxation code from pkg/exf (now use only pkg/rbcs) |
5591 |
* Thanks to Tom Haine for testing! |
* Thanks to Tom Haine for testing! |
5592 |
|
|
5593 |
checkpoint57z_post |
checkpoint57z_post (2005/12/31) |
5594 |
o make CG3D solver compatible with Free-surface at k > 1 (p-coordinate): |
o make CG3D solver compatible with Free-surface at k > 1 (p-coordinate): |
5595 |
affects output (@ truncation level) of exp. plume_on_slope ; updated. |
affects output (@ truncation level) of exp. plume_on_slope ; updated. |
5596 |
o fix the pickup behavior for obcs in combination with ptracers |
o fix the pickup behavior for obcs in combination with ptracers |
5621 |
* Absolute scale somewhat unclear so far |
* Absolute scale somewhat unclear so far |
5622 |
* no area weighting was included since no other cost term does so far |
* no area weighting was included since no other cost term does so far |
5623 |
|
|
5624 |
checkpoint57y_post |
checkpoint57y_post (2005/12/08) |
5625 |
First step for a NLFS adjoint |
First step for a NLFS adjoint |
5626 |
o initially suppress rStar (new flag DISABLE_RSTAR_CODE) |
o initially suppress rStar (new flag DISABLE_RSTAR_CODE) |
5627 |
o new init. routines for calc_r_star, calc_surf_dr |
o new init. routines for calc_r_star, calc_surf_dr |
5628 |
o still need to deal with ini_masks_etc |
o still need to deal with ini_masks_etc |
5629 |
o testreport seemed happy |
o testreport seemed happy |
5630 |
checkpoint57y_pre |
checkpoint57y_pre (2005/12/08) |
5631 |
|
|
5632 |
o obcs: always reset wVel & eta (to zero or prescribe it) at the OBs. |
o obcs: always reset wVel & eta (to zero or prescribe it) at the OBs. |
5633 |
o add new package rbcs (for relaxing ptracers at boundaries/depth/surface etc) |
o add new package rbcs (for relaxing ptracers at boundaries/depth/surface etc) |
5636 |
o clean up GCHEM_OPTIONS.h/DIC_OPTIONS.h (all options should |
o clean up GCHEM_OPTIONS.h/DIC_OPTIONS.h (all options should |
5637 |
be in GCHEM_OPTIONS). |
be in GCHEM_OPTIONS). |
5638 |
|
|
5639 |
checkpoint57x_post |
checkpoint57x_post (2005/12/04) |
5640 |
o fix testreport Pb in multiple test experiment. |
o fix testreport Pb in multiple test experiment. |
5641 |
o cleanup our namelist syntax in verification: |
o cleanup our namelist syntax in verification: |
5642 |
- make it more F95 standards compliant (some work still needed) |
- make it more F95 standards compliant (some work still needed) |
5656 |
(there are a number of extensive recomputations) |
(there are a number of extensive recomputations) |
5657 |
* Initialize certain variables needed for adjoint |
* Initialize certain variables needed for adjoint |
5658 |
|
|
5659 |
checkpoint57w_post |
checkpoint57w_post (2005/11/03) |
5660 |
o pkg/mdsio: use MAX_LEN_FNAM (instead of hard coded 80) for file-names |
o pkg/mdsio: use MAX_LEN_FNAM (instead of hard coded 80) for file-names |
5661 |
fix the singleCpuIO RS version of MDSWRITEFIELD |
fix the singleCpuIO RS version of MDSWRITEFIELD |
5662 |
and add a WARNING if using globalFiles=T with multi-processors. |
and add a WARNING if using globalFiles=T with multi-processors. |
5673 |
ptracers in a large domain with a constant non-zero value. Also, |
ptracers in a large domain with a constant non-zero value. Also, |
5674 |
untangle ptracers_init.F a little. |
untangle ptracers_init.F a little. |
5675 |
|
|
5676 |
checkpoint57v_post |
checkpoint57v_post (2005/10/13) |
5677 |
o change dome exp. to use variable viscosity in side-drag terms. |
o change dome exp. to use variable viscosity in side-drag terms. |
5678 |
o remove all the files from the cfc_offline test since they are now |
o remove all the files from the cfc_offline test since they are now |
5679 |
incorporated into tutorial_cfc_offline which has been producing |
incorporated into tutorial_cfc_offline which has been producing |
5714 |
o CS-grid: fix divergence contribution to Leith viscosity. Affects (@ |
o CS-grid: fix divergence contribution to Leith viscosity. Affects (@ |
5715 |
truncation level) 4/5 MLAdjust test results (11&12 digits match). |
truncation level) 4/5 MLAdjust test results (11&12 digits match). |
5716 |
|
|
5717 |
checkpoint57t_post |
checkpoint57t_post (2005/10/03) |
5718 |
o test biharmonic viscosity + no-slip with exp: global_ocean.cs32x15.viscA4 |
o test biharmonic viscosity + no-slip with exp: global_ocean.cs32x15.viscA4 |
5719 |
o finish adding brackets (coriolis S/R, vecinv) in multi-terms sum to get |
o finish adding brackets (coriolis S/R, vecinv) in multi-terms sum to get |
5720 |
same truncation, independent of the face number: affects affects several |
same truncation, independent of the face number: affects affects several |
5737 |
Suggested values of viscosity parameters found in mom_calc_visc. |
Suggested values of viscosity parameters found in mom_calc_visc. |
5738 |
Many new viscosity diagnostics available. |
Many new viscosity diagnostics available. |
5739 |
|
|
5740 |
checkpoint57s_post |
checkpoint57s_post (2005/09/20) |
5741 |
o Add clearing-house for viscosity calculations, mom_calc_visc and |
o Add clearing-house for viscosity calculations, mom_calc_visc and |
5742 |
correct numerous bugs in LeithD and Smagorinsky discretizations. |
correct numerous bugs in LeithD and Smagorinsky discretizations. |
5743 |
mom_calc_visc now allows for Smagorinsky, Leith and LeithD to be |
mom_calc_visc now allows for Smagorinsky, Leith and LeithD to be |
5763 |
and works with both EXCH1 and EXCH2 (but needs more testing) |
and works with both EXCH1 and EXCH2 (but needs more testing) |
5764 |
- writing works for all verification test cases w/ g77 on Linux |
- writing works for all verification test cases w/ g77 on Linux |
5765 |
|
|
5766 |
checkpoint57r_post |
checkpoint57r_post (2005/09/07) |
5767 |
o make MNC variable initialization happen earlier |
o make MNC variable initialization happen earlier |
5768 |
o add diagnostics for (almost) each term of the momentum Eq. |
o add diagnostics for (almost) each term of the momentum Eq. |
5769 |
o remove SST,SSS,UVEL_k2,VVEL_k2 diagnostics. |
o remove SST,SSS,UVEL_k2,VVEL_k2 diagnostics. |
5783 |
o natl_box_adjoint input_seaice for Lab. Sea now available online via wget |
o natl_box_adjoint input_seaice for Lab. Sea now available online via wget |
5784 |
(see README file) |
(see README file) |
5785 |
|
|
5786 |
checkpoint57q_post |
checkpoint57q_post (2005/08/19) |
5787 |
o fix initialisation Pb in calc_gw (get NANs in exp5 with g77) |
o fix initialisation Pb in calc_gw (get NANs in exp5 with g77) |
5788 |
o fix annoying months-old bug in mnc/mdsio output for seaice pkg |
o fix annoying months-old bug in mnc/mdsio output for seaice pkg |
5789 |
- bug was reported by Jean-Michel and Ian Fenty |
- bug was reported by Jean-Michel and Ian Fenty |
5800 |
* verification/OpenAD/code/ has necessary scripts and description; |
* verification/OpenAD/code/ has necessary scripts and description; |
5801 |
* converts, compiles and runs successfully; |
* converts, compiles and runs successfully; |
5802 |
|
|
5803 |
checkpoint57p_post |
checkpoint57p_post (2005/08/01) |
5804 |
o reading of delXfile & delYfile moved from ini_parms.F to ini_grid.F |
o reading of delXfile & delYfile moved from ini_parms.F to ini_grid.F |
5805 |
o move ${PKG}_MNC_INIT from ${PKG}_READ_PARAMS to ${PKG}_INIT_FIXED |
o move ${PKG}_MNC_INIT from ${PKG}_READ_PARAMS to ${PKG}_INIT_FIXED |
5806 |
(already the case for some pkgs, including recent MNC_init, e.g. thsice) |
(already the case for some pkgs, including recent MNC_init, e.g. thsice) |
5814 |
global_ocean_pressure(10),ideal_2D_oce(10),internal_wave(9),lab_sea(12), |
global_ocean_pressure(10),ideal_2D_oce(10),internal_wave(9),lab_sea(12), |
5815 |
matrix_example(7!),natl_box(12),plume_on_slope(11),vermix(12x3,11x2). |
matrix_example(7!),natl_box(12),plume_on_slope(11),vermix(12x3,11x2). |
5816 |
|
|
5817 |
checkpoint57o_post |
checkpoint57o_post (2005/07/30) |
5818 |
o fix MNC/MDSIO flags in PTRACERS so that (1) it works, and |
o fix MNC/MDSIO flags in PTRACERS so that (1) it works, and |
5819 |
(2) its ready to be documented during the 20050801 DocFest |
(2) its ready to be documented during the 20050801 DocFest |
5820 |
o MNC-ify the gmredi package -- tested and works w/ and w/o mnc |
o MNC-ify the gmredi package -- tested and works w/ and w/o mnc |
5823 |
in global1x1_tot/code_seaice_adj to access indices 32, 33 |
in global1x1_tot/code_seaice_adj to access indices 32, 33 |
5824 |
(worth another tag) |
(worth another tag) |
5825 |
|
|
5826 |
checkpoint57n_post |
checkpoint57n_post (2005/07/29) |
5827 |
o adding precip control xx_precip 32 |
o adding precip control xx_precip 32 |
5828 |
o adding swflux control xx_swflux 33 |
o adding swflux control xx_swflux 33 |
5829 |
o Replacing 10 forcing penalty cost routines by 1 generic. |
o Replacing 10 forcing penalty cost routines by 1 generic. |
5839 |
(applies in particular to tapelev I/O) |
(applies in particular to tapelev I/O) |
5840 |
o removed inefficient K-loop in all active_file*control*.F |
o removed inefficient K-loop in all active_file*control*.F |
5841 |
|
|
5842 |
checkpoint57m_post |
checkpoint57m_post (2005/07/28) |
5843 |
o re-arrange exp. adjustment.cs-32x32x1 (adjust_nlfs.cs-32x32x1 merge into) |
o re-arrange exp. adjustment.cs-32x32x1 (adjust_nlfs.cs-32x32x1 merge into) |
5844 |
and advect_cs (use EXCH-2 and standard cs-32 grid files). |
and advect_cs (use EXCH-2 and standard cs-32 grid files). |
5845 |
o pkg/exch2: filling of face-corner halo regions is optional |
o pkg/exch2: filling of face-corner halo regions is optional |
5846 |
(ifdef W2_FILL_NULL_REGIONS) and is turned off by default. |
(ifdef W2_FILL_NULL_REGIONS) and is turned off by default. |
5847 |
|
|
5848 |
checkpoint57l_post |
checkpoint57l_post (2005/07/14) |
5849 |
tag before updating tutorials (pre-release-2) |
tag before updating tutorials (pre-release-2) |
5850 |
o add cos & sin of grid-direction orientation angle (curvilinear grid only, |
o add cos & sin of grid-direction orientation angle (curvilinear grid only, |
5851 |
for output and interpolation of input fields onto model grid) |
for output and interpolation of input fields onto model grid) |
5857 |
o add mnc output capability to diagnostics/diagstat and update |
o add mnc output capability to diagnostics/diagstat and update |
5858 |
our cvsignore files for the ACSII output generated |
our cvsignore files for the ACSII output generated |
5859 |
|
|
5860 |
checkpoint57k_post |
checkpoint57k_post (2005/07/02) |
5861 |
o lab_sea now uses diagnostics package and provides a suite of |
o lab_sea now uses diagnostics package and provides a suite of |
5862 |
new EXF diagnostics output. |
new EXF diagnostics output. |
5863 |
|
|
5864 |
checkpoint57j_post |
checkpoint57j_post (2005/06/30) |
5865 |
o exf |
o exf |
5866 |
* bug fix in exf_bulkformulae for psimh (spotted by Eliyahu Biton): |
* bug fix in exf_bulkformulae for psimh (spotted by Eliyahu Biton): |
5867 |
Bracket missing in eqn. for psimh (eqn. 7 of Large & Pond, 1982); |
Bracket missing in eqn. for psimh (eqn. 7 of Large & Pond, 1982); |
5891 |
o fix few little things to avoid floating error with -ftrapuv (ifort v9) |
o fix few little things to avoid floating error with -ftrapuv (ifort v9) |
5892 |
(ini_spherical_polar_grid.F, calc_r_star.F, monitor/mon_surfcor.F) |
(ini_spherical_polar_grid.F, calc_r_star.F, monitor/mon_surfcor.F) |
5893 |
|
|
5894 |
checkpoint57i_post |
checkpoint57i_post (2005/06/19) |
5895 |
o Diagnostics package was changed: diagnostic allocation is now deactivated |
o Diagnostics package was changed: diagnostic allocation is now deactivated |
5896 |
by setting an empty file name in the namelist (used to be by setting 0 frequency) |
by setting an empty file name in the namelist (used to be by setting 0 frequency) |
5897 |
o momentum advection (VI form) options: activate 4th.O vorticity Coriolis ; |
o momentum advection (VI form) options: activate 4th.O vorticity Coriolis ; |
5910 |
tested against monitor output (including land & thSIce) on various exp. |
tested against monitor output (including land & thSIce) on various exp. |
5911 |
o make seaice-pkg I/O type flags (MNC/MDS) more standard. |
o make seaice-pkg I/O type flags (MNC/MDS) more standard. |
5912 |
|
|
5913 |
checkpoint57h_done |
checkpoint57h_done (2005/05/19) |
5914 |
tag after changing user customized files (DIAGNOSTICS_SIZE.h, |
tag after changing user customized files (DIAGNOSTICS_SIZE.h, |
5915 |
data.diagnostics, data.gchem, data.ptracers) is done. |
data.diagnostics, data.gchem, data.ptracers) is done. |
5916 |
|
|
5919 |
o remove "baseTime" (no used) from arg. list of DIFF_BASE_MULTIPLE |
o remove "baseTime" (no used) from arg. list of DIFF_BASE_MULTIPLE |
5920 |
and rename it: DIFFERENT_MULTIPLE |
and rename it: DIFFERENT_MULTIPLE |
5921 |
|
|
5922 |
checkpoint57h_post |
checkpoint57h_post (2005/05/14) |
5923 |
o move tIter0 from data.gchem to PTRACERS_Iter0 in data.ptracers |
o move tIter0 from data.gchem to PTRACERS_Iter0 in data.ptracers |
5924 |
o pkg/diagnostics: change output frequency, now in seconds (instead |
o pkg/diagnostics: change output frequency, now in seconds (instead |
5925 |
of Nb of iterations). This requires to change data.diagnostics. |
of Nb of iterations). This requires to change data.diagnostics. |
5926 |
checkpoint57h_pre |
checkpoint57h_pre (2005/05/12) |
5927 |
|
|
5928 |
o in mnc, let the user create the output dir if both mnc_outdir_date |
o in mnc, let the user create the output dir if both mnc_outdir_date |
5929 |
and mnc_outdir_num are false |
and mnc_outdir_num are false |
5937 |
o fix mnc flags in pkg/seaice so that they are "owned" by seaice, |
o fix mnc flags in pkg/seaice so that they are "owned" by seaice, |
5938 |
not mnc -- this mistake was found by JMC and is now corrected |
not mnc -- this mistake was found by JMC and is now corrected |
5939 |
|
|
5940 |
checkpoint57g_post |
checkpoint57g_post (2005/04/15) |
5941 |
o add Adams-Bashforth 3rd Order time stepping: |
o add Adams-Bashforth 3rd Order time stepping: |
5942 |
- default remains AB-2 (#undef ALLOW_ADAMSBASHFORTH_3) |
- default remains AB-2 (#undef ALLOW_ADAMSBASHFORTH_3) |
5943 |
- not yet implemented with NH, CD_Scheme, pTracers, MNC_pickup ... |
- not yet implemented with NH, CD_Scheme, pTracers, MNC_pickup ... |
5944 |
checkpoint57g_pre |
checkpoint57g_pre (2005/04/15) |
5945 |
|
|
5946 |
o make lambda[Theta,Salt]ClimRelax spatially varying |
o make lambda[Theta,Salt]ClimRelax spatially varying |
5947 |
(default remains spatially uniform constant based on tau) |
(default remains spatially uniform constant based on tau) |
5951 |
o separate masks used for ctrl_pack/unpack 'from write_grid' output |
o separate masks used for ctrl_pack/unpack 'from write_grid' output |
5952 |
(suggested by G. Forget) |
(suggested by G. Forget) |
5953 |
|
|
5954 |
checkpoint57f_post |
checkpoint57f_post (2005/04/06) |
5955 |
o add parameter "baseTime" = model base time = time at iteration zero |
o add parameter "baseTime" = model base time = time at iteration zero |
5956 |
new function DIFF_BASE_MULTIPLE (replace DIFFERENT_MULTIPLE) to |
new function DIFF_BASE_MULTIPLE (replace DIFFERENT_MULTIPLE) to |
5957 |
account for baseTime shift |
account for baseTime shift |
5958 |
o move Coriolis arrays from PARAMS.h to GRID.h |
o move Coriolis arrays from PARAMS.h to GRID.h |
5959 |
checkpoint57f_pre |
checkpoint57f_pre (2005/04/06) |
5960 |
|
|
5961 |
o mnc-ifying the seaice package |
o mnc-ifying the seaice package |
5962 |
o introduced an alternative length scale calculation for use in the limiting |
o introduced an alternative length scale calculation for use in the limiting |
5977 |
* gad_calc_rhs: fool adjoint, revert to advscheme=30 in reverse when using 33 |
* gad_calc_rhs: fool adjoint, revert to advscheme=30 in reverse when using 33 |
5978 |
* mom_vi_hdissip: to be able to use Leith scheme in adjoint |
* mom_vi_hdissip: to be able to use Leith scheme in adjoint |
5979 |
|
|
5980 |
checkpoint57e_post |
checkpoint57e_post (2005/02/28) |
5981 |
o Adding eddy stress controls a la Ferreira et al. |
o Adding eddy stress controls a la Ferreira et al. |
5982 |
checkpoint57e_pre (actually was tagged: eckpoint57e_pre) |
checkpoint57e_pre (actually was tagged: eckpoint57e_pre) |
5983 |
|
|
5995 |
o allow to use pkg diagnostics for LAND pkg output & Shapiro Tendencies. |
o allow to use pkg diagnostics for LAND pkg output & Shapiro Tendencies. |
5996 |
o pkg/shap_filt: fix for multi-tiles per face (CS-grid with EXCH2) |
o pkg/shap_filt: fix for multi-tiles per face (CS-grid with EXCH2) |
5997 |
|
|
5998 |
checkpoint57d_post |
checkpoint57d_post (2005/02/11) |
5999 |
o pkg/thsice used in the ocean: fix tile Pb related to sIceLoad forcing |
o pkg/thsice used in the ocean: fix tile Pb related to sIceLoad forcing |
6000 |
o modify verification/ideal_2D_oce so that it tests the creation of mnc |
o modify verification/ideal_2D_oce so that it tests the creation of mnc |
6001 |
output from the diagnostics package |
output from the diagnostics package |
6017 |
(note: still needs some work specially for snap-shot diagnostics) |
(note: still needs some work specially for snap-shot diagnostics) |
6018 |
duplicate & replace UVELVVEL diagnostics with UV_VEL_C & UV_VEL_Z |
duplicate & replace UVELVVEL diagnostics with UV_VEL_C & UV_VEL_Z |
6019 |
|
|
6020 |
checkpoint57c_post |
checkpoint57c_post (2005/01/27) |
6021 |
o Change testing option (-ieee) to get closer agreement between g77 & ifort |
o Change testing option (-ieee) to get closer agreement between g77 & ifort |
6022 |
o generate new output.txt files on faulks with g77 & the new -ieee option |
o generate new output.txt files on faulks with g77 & the new -ieee option |
6023 |
checkpoint57c_pre |
checkpoint57c_pre (2005/01/27) |
6024 |
|
|
6025 |
o add "_d 0" in freeze ; change some "FLOAT" to "DFLOAT" and went back (TAF); |
o add "_d 0" in freeze ; change some "FLOAT" to "DFLOAT" and went back (TAF); |
6026 |
update output.txt of exp. global_ocean.90x40x15 |
update output.txt of exp. global_ocean.90x40x15 |
6053 |
* enable useSingleCpuIO for state estimation (ctrl_pack/unpack) mdsio_gl.F |
* enable useSingleCpuIO for state estimation (ctrl_pack/unpack) mdsio_gl.F |
6054 |
* N.B.: leave tiled I/O for tapelev (i.e. mds...vector) |
* N.B.: leave tiled I/O for tapelev (i.e. mds...vector) |
6055 |
|
|
6056 |
checkpoint57b_post |
checkpoint57b_post (2004/12/20) |
6057 |
o simplify options in diagnostics_fill arguments (remove weird combinations) |
o simplify options in diagnostics_fill arguments (remove weird combinations) |
6058 |
o fix MNC coordinate variables so that they now contain per-face index |
o fix MNC coordinate variables so that they now contain per-face index |
6059 |
values (instead of xC,xG,yC,yG values) when run with EXCH2 since, in |
values (instead of xC,xG,yC,yG values) when run with EXCH2 since, in |
6099 |
look through the short list of active diag. (instead of the long list) |
look through the short list of active diag. (instead of the long list) |
6100 |
create function DIAGNOSTICS_IS_ON to tell if a diagnostics is active |
create function DIAGNOSTICS_IS_ON to tell if a diagnostics is active |
6101 |
|
|
6102 |
checkpoint57a_post |
checkpoint57a_post (2004/12/10) |
6103 |
o this set of changes restores TAMC compatibility |
o this set of changes restores TAMC compatibility |
6104 |
tested for global_ocean.90x40x15 adjoint on trough |
tested for global_ocean.90x40x15 adjoint on trough |
6105 |
(what a pain) |
(what a pain) |
6106 |
|
|
6107 |
checkpoint57a_pre |
checkpoint57a_pre (2004/12/10) |
6108 |
o some modifs in tools/build_options for sunos |
o some modifs in tools/build_options for sunos |
6109 |
o call ctrl_pack for ctrl at end for optimcycle=0 |
o call ctrl_pack for ctrl at end for optimcycle=0 |
6110 |
|
|
6111 |
checkpoint57 |
checkpoint57 (2004/12/09) |
6112 |
o add horizontal bi-harmonic viscosity for vertical velocity |
o add horizontal bi-harmonic viscosity for vertical velocity |
6113 |
- new parameter viscA4W (defaults to viscA4) |
- new parameter viscA4W (defaults to viscA4) |
6114 |
- affects only non-hydrostatic code |
- affects only non-hydrostatic code |
6126 |
o Apply Cooper & Haines representative estimates also at sub-surface (k=Nr) |
o Apply Cooper & Haines representative estimates also at sub-surface (k=Nr) |
6127 |
(theta2, salt2 in ecco_cost_weights) |
(theta2, salt2 in ecco_cost_weights) |
6128 |
|
|
6129 |
checkpoint56c_post |
checkpoint56c_post (2004/12/03) |
6130 |
o OBCS as control variables |
o OBCS as control variables |
6131 |
- update ctrl_ad_diff.list, obcs_ad_diff.list |
- update ctrl_ad_diff.list, obcs_ad_diff.list |
6132 |
- remove balance of obcs controls from default |
- remove balance of obcs controls from default |
6144 |
o mdsio: |
o mdsio: |
6145 |
- i/o-vector change debugLevel from debLevA to debLevB |
- i/o-vector change debugLevel from debLevA to debLevB |
6146 |
|
|
6147 |
checkpoint56b_post |
checkpoint56b_post (2004/12/01) |
6148 |
o collect all ptracers output in an new routine (PTRACERS_OUTPUT) that |
o collect all ptracers output in an new routine (PTRACERS_OUTPUT) that |
6149 |
is called from DO_THE_MODEL_IO |
is called from DO_THE_MODEL_IO |
6150 |
- rename PTRACERS_STATV_WRITE to PTRACERS_WRITE_TIMEAVE |
- rename PTRACERS_STATV_WRITE to PTRACERS_WRITE_TIMEAVE |
6159 |
testreport. |
testreport. |
6160 |
o ptracers_monitor: bug fix for MPI |
o ptracers_monitor: bug fix for MPI |
6161 |
|
|
6162 |
checkpoint56a_post |
checkpoint56a_post (2004/11/28) |
6163 |
o GCHEM: finish reorganizating the package |
o GCHEM: finish reorganizating the package |
6164 |
- forward_step calls GCHEM_CALC_TENDENDY, which computes gchemTendency |
- forward_step calls GCHEM_CALC_TENDENDY, which computes gchemTendency |
6165 |
(introduces another 3D-array for each passive tracer, but only if |
(introduces another 3D-array for each passive tracer, but only if |
6204 |
- cleaning up |
- cleaning up |
6205 |
o small cleaning of exch2: remove files that are also in eesupp/src |
o small cleaning of exch2: remove files that are also in eesupp/src |
6206 |
|
|
6207 |
checkpoint56 |
checkpoint56 (2004/11/17) |
6208 |
o AIM: read land-Fraction earlier (from ini-fixed) and monitor land at nIter0 |
o AIM: read land-Fraction earlier (from ini-fixed) and monitor land at nIter0 |
6209 |
o mnc: cleanup "full" files--fixes out-of-memory problem |
o mnc: cleanup "full" files--fixes out-of-memory problem |
6210 |
o ECCO-GODAE |
o ECCO-GODAE |
6234 |
o exf: exf_inscal_runoff: separated default conversion [m/year] -> [m/sec] |
o exf: exf_inscal_runoff: separated default conversion [m/year] -> [m/sec] |
6235 |
from sign change |
from sign change |
6236 |
|
|
6237 |
checkpoint55j_post |
checkpoint55j_post (2004/11/10) |
6238 |
o isolate dissipation tendency (allow to keep it out off AB) in V.I form. |
o isolate dissipation tendency (allow to keep it out off AB) in V.I form. |
6239 |
affects (truncation level) output.txt of global_ocean.cs32x15(&.thsice) |
affects (truncation level) output.txt of global_ocean.cs32x15(&.thsice) |
6240 |
o add consistent build directories and .cvsignore files to verification |
o add consistent build directories and .cvsignore files to verification |
6245 |
o allow (vecinv only) a different horiz. viscosity for Divergence and Vorticity; |
o allow (vecinv only) a different horiz. viscosity for Divergence and Vorticity; |
6246 |
affects (truncation level) output.txt of global_ocean.cs32x15(&.thsice) |
affects (truncation level) output.txt of global_ocean.cs32x15(&.thsice) |
6247 |
|
|
6248 |
checkpoint55i_post |
checkpoint55i_post (2004/10/28) |
6249 |
o change arrays for total vertical diffusivity (2.D if explicit, |
o change arrays for total vertical diffusivity (2.D if explicit, |
6250 |
3.D if implicit) ; each ptracer uses its own background value. |
3.D if implicit) ; each ptracer uses its own background value. |
6251 |
o added mnc/NetCDF output capability to ocn_compon_interf |
o added mnc/NetCDF output capability to ocn_compon_interf |
6260 |
o Compute the non-local term using either KPP vertical diffusivity (=default) |
o Compute the non-local term using either KPP vertical diffusivity (=default) |
6261 |
or the total vertical diffusivity (when KPP_ghatUseTotalDiffus=T) |
or the total vertical diffusivity (when KPP_ghatUseTotalDiffus=T) |
6262 |
|
|
6263 |
checkpoint55h_post |
checkpoint55h_post (2004/10/20) |
6264 |
o add verification test "vermix" |
o add verification test "vermix" |
6265 |
o remove all the *_ioinc flags and replace with the single global |
o remove all the *_ioinc flags and replace with the single global |
6266 |
outputTypesInclusive flag |
outputTypesInclusive flag |
6268 |
o call PACKAGE_BOOT & PACKAGES_READPARMS just after INI_PARMS |
o call PACKAGE_BOOT & PACKAGES_READPARMS just after INI_PARMS |
6269 |
o useMNC moved from data.mnc to data.pkg |
o useMNC moved from data.mnc to data.pkg |
6270 |
|
|
6271 |
checkpoint55g_post |
checkpoint55g_post (2004/10/14) |
6272 |
o Renaming carbon AD experiments to comply with testreport conventions |
o Renaming carbon AD experiments to comply with testreport conventions |
6273 |
o Updating adjoint of Held-Suarez hs94.1x64x5 |
o Updating adjoint of Held-Suarez hs94.1x64x5 |
6274 |
o Fixing directives for non-ECCO forward_step, after ECCO directives |
o Fixing directives for non-ECCO forward_step, after ECCO directives |
6278 |
o Updating adjoint output for natl_box_adjoint after |
o Updating adjoint output for natl_box_adjoint after |
6279 |
pkg/ecco has been modified (see taga c55d_post) |
pkg/ecco has been modified (see taga c55d_post) |
6280 |
|
|
6281 |
checkpoint55f_post |
checkpoint55f_post (2004/10/13) |
6282 |
o rename to timeave_init_fixed |
o rename to timeave_init_fixed |
6283 |
|
|
6284 |
checkpoint55e_post |
checkpoint55e_post (2004/10/13) |
6285 |
o some delicate re-shuffle of store directives to avoid one |
o some delicate re-shuffle of store directives to avoid one |
6286 |
extra call of do_oceanic_physics |
extra call of do_oceanic_physics |
6287 |
affects ecco_the_main_loop.F, do_oceanic_physics.F |
affects ecco_the_main_loop.F, do_oceanic_physics.F |
6289 |
o NB: this may break global_ocean adjoint temporarily, |
o NB: this may break global_ocean adjoint temporarily, |
6290 |
but it is clear how to fix it. Will do later, need this now. |
but it is clear how to fix it. Will do later, need this now. |
6291 |
|
|
6292 |
checkpoint55d_post |
checkpoint55d_post (2004/10/11) |
6293 |
o ECCO specific cost function terms (up-to-date with 1x1 runs) |
o ECCO specific cost function terms (up-to-date with 1x1 runs) |
6294 |
o ecco_cost_weights is modified to 1x1 runs |
o ecco_cost_weights is modified to 1x1 runs |
6295 |
o modifs to allow observations to be read in as |
o modifs to allow observations to be read in as |
6296 |
single file or yearly files |
single file or yearly files |
6297 |
o enable to read exf forcing fields as either |
o enable to read exf forcing fields as either |
6298 |
single file or yearly files (flag useExfYearlyFields) |
single file or yearly files (flag useExfYearlyFields) |
6299 |
checkpoint55d_pre |
checkpoint55d_pre (2004/10/08) |
6300 |
|
|
6301 |
o switch between 2-level and 3-level checkpointing |
o switch between 2-level and 3-level checkpointing |
6302 |
o add ability of MNC to write local and "partial" (eg. 2D slices where |
o add ability of MNC to write local and "partial" (eg. 2D slices where |
6344 |
- changed argument list of OBCS_CALC to myTime+deltaTclock |
- changed argument list of OBCS_CALC to myTime+deltaTclock |
6345 |
- fixed about 35 bugs in obcs_external_fields_load |
- fixed about 35 bugs in obcs_external_fields_load |
6346 |
|
|
6347 |
checkpoint55c_post |
checkpoint55c_post (2004/09/23) |
6348 |
o obcs stuff |
o obcs stuff |
6349 |
- new runtime flags useOBCSprescribe, useOBCSbalance |
- new runtime flags useOBCSprescribe, useOBCSbalance |
6350 |
- re-arranged obcs_calc |
- re-arranged obcs_calc |
6358 |
o make the MNC_CW_ADD_VATTR_* subroutines all take scalar arguments |
o make the MNC_CW_ADD_VATTR_* subroutines all take scalar arguments |
6359 |
which simplifies the calls and passes the ifc check-bounds test |
which simplifies the calls and passes the ifc check-bounds test |
6360 |
|
|
6361 |
checkpoint55b_post |
checkpoint55b_post (2004/09/22) |
6362 |
o add a 2D scalar, Z location, exchange_2 routine. |
o add a 2D scalar, Z location, exchange_2 routine. |
6363 |
o EXCH_UV for CS-grid: add one u,v in the corner-halo region, allows |
o EXCH_UV for CS-grid: add one u,v in the corner-halo region, allows |
6364 |
to compute vorticity on a wider stencil [e.g., vort3(0,1)&(1,0)] |
to compute vorticity on a wider stencil [e.g., vort3(0,1)&(1,0)] |
6369 |
o fix gad_advection.F (CubedSphere part), back to version 1.23 |
o fix gad_advection.F (CubedSphere part), back to version 1.23 |
6370 |
o fix bug in mom_vi_del2uv.F (CubedSphere part). |
o fix bug in mom_vi_del2uv.F (CubedSphere part). |
6371 |
|
|
6372 |
checkpoint55a_post |
checkpoint55a_post (2004/09/20) |
6373 |
o merged code to |
o merged code to |
6374 |
* prescribe/read time-dependent open boundaries |
* prescribe/read time-dependent open boundaries |
6375 |
(works in conjunction with exf, cal) |
(works in conjunction with exf, cal) |
6377 |
* each boundary N/S/E/W now has its own CPP option |
* each boundary N/S/E/W now has its own CPP option |
6378 |
(healthy for the adjoint) |
(healthy for the adjoint) |
6379 |
|
|
6380 |
checkpoint55 |
checkpoint55 (2004/09/17) |
6381 |
o up-to-date adjoint of previous breaks |
o up-to-date adjoint of previous breaks |
6382 |
- natl_box_adjoint: problem for exp 12, 13: cost = 0. needs fix |
- natl_box_adjoint: problem for exp 12, 13: cost = 0. needs fix |
6383 |
- global_ocean_ebm: adjoint still needs fix (TLM ok) |
- global_ocean_ebm: adjoint still needs fix (TLM ok) |
6387 |
o remove all tr1-related code (ALLOW_PASSIVE_TRACER) |
o remove all tr1-related code (ALLOW_PASSIVE_TRACER) |
6388 |
(adjoint stuff still has some tr1 'names', but all use ptracer arrays) |
(adjoint stuff still has some tr1 'names', but all use ptracer arrays) |
6389 |
|
|
6390 |
checkpoint54f_post |
checkpoint54f_post (2004/09/16) |
6391 |
o in verification/carbin/ remove experiment related to |
o in verification/carbin/ remove experiment related to |
6392 |
ALLOW_PASSIVE_TRACER (array tr1 etc) |
ALLOW_PASSIVE_TRACER (array tr1 etc) |
6393 |
code_ad/ input_ad/ results_ad |
code_ad/ input_ad/ results_ad |
6413 |
- numerous small formatting cleanups for ProTeX |
- numerous small formatting cleanups for ProTeX |
6414 |
o add version info (via BUILD_INFO.h) to MNC and stdout |
o add version info (via BUILD_INFO.h) to MNC and stdout |
6415 |
|
|
6416 |
checkpoint54e_post |
checkpoint54e_post (2004/09/02) |
6417 |
o add two new packages |
o add two new packages |
6418 |
- pp81 (Packanowski and Philander, 1981), Richardson number and |
- pp81 (Packanowski and Philander, 1981), Richardson number and |
6419 |
stratification dependent mixing |
stratification dependent mixing |
6420 |
- my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme |
- my82 (Mellor and Yamada, 1982) level 2 turbulence closure scheme |
6421 |
- these scheme operate in a similar manner as KPP (without ghat, of |
- these scheme operate in a similar manner as KPP (without ghat, of |
6422 |
course), however there is only one diffusivity that is used for both |
course), however there is only one diffusivity that is used for both |
6423 |
temperature and salinity (and passive tracers)ç |
temperature and salinity (and passive tracers) |
6424 |
o add offline package |
o add offline package |
6425 |
o add "verification/dic_example" which contains a dic-gchem-ptracer setup |
o add "verification/dic_example" which contains a dic-gchem-ptracer setup |
6426 |
provided by Stephanie Dutkiewicz |
provided by Stephanie Dutkiewicz |
6427 |
o genmake2: add ability to search for C compilers and cleanup test output |
o genmake2: add ability to search for C compilers and cleanup test output |
6428 |
- fixes recent SX-6 problems and should help with others (eg. HP-UX) |
- fixes recent SX-6 problems and should help with others (eg. HP-UX) |
6429 |
|
|
6430 |
checkpoint54d_post |
checkpoint54d_post (2004/07/27) |
6431 |
o data.diagnostics: if levels() is unspecified then ALL levels are diagnosed |
o data.diagnostics: if levels() is unspecified then ALL levels are diagnosed |
6432 |
o bug fix in pkg/cal/cal_addtime.F for TheCalendar='model' day count is wrong, |
o bug fix in pkg/cal/cal_addtime.F for TheCalendar='model' day count is wrong, |
6433 |
leading to additional shift by 5 days each year of integration |
leading to additional shift by 5 days each year of integration |
6443 |
o genmake2 fixes so netcdf now works on halem ("osf1_alpha_*") |
o genmake2 fixes so netcdf now works on halem ("osf1_alpha_*") |
6444 |
o bugs fixed in kpp_calc.F (ustarY) and external_forcing.F (Qsw & Partial-cell) |
o bugs fixed in kpp_calc.F (ustarY) and external_forcing.F (Qsw & Partial-cell) |
6445 |
|
|
6446 |
checkpoint54c_post |
checkpoint54c_post (2004/07/18) |
6447 |
o replace surfaceTendency U,V,S,T,Tice,Ptr by surfaceForcing U,V,S,T,Tice,Ptr |
o replace surfaceTendency U,V,S,T,Tice,Ptr by surfaceForcing U,V,S,T,Tice,Ptr |
6448 |
this affects (truncation error) output.txt of test-exp: |
this affects (truncation error) output.txt of test-exp: |
6449 |
global_ocean_ebm,_pressure,.cs32x15(&.thsice), lab_sea & natl_box |
global_ocean_ebm,_pressure,.cs32x15(&.thsice), lab_sea & natl_box |
6454 |
o start to test mnc routinely in exp0 |
o start to test mnc routinely in exp0 |
6455 |
o add sea-ice loading (sIceLoad) as a new forcing field. |
o add sea-ice loading (sIceLoad) as a new forcing field. |
6456 |
|
|
6457 |
checkpoint54b_post |
checkpoint54b_post (2004/07/08) |
6458 |
o add testreport "-j JOBS" option for parallel builds (tested and pretty |
o add testreport "-j JOBS" option for parallel builds (tested and pretty |
6459 |
impressive on Altix and Opteron systems) |
impressive on Altix and Opteron systems) |
6460 |
o diagnostics can now write NetCDF files through the mnc package |
o diagnostics can now write NetCDF files through the mnc package |
6464 |
affects (truncation error) output of lab_sea & natl_box exp.: updated |
affects (truncation error) output of lab_sea & natl_box exp.: updated |
6465 |
o change pickup _cd & _ptracers (old pickup restart: usePickupBeforeC54=.T.) |
o change pickup _cd & _ptracers (old pickup restart: usePickupBeforeC54=.T.) |
6466 |
|
|
6467 |
checkpoint54a_post |
checkpoint54a_post (2004/07/06) |
6468 |
o re-write staggerTimeStep: step fwd U,V and then T,S (reverse the order). |
o re-write staggerTimeStep: step fwd U,V and then T,S (reverse the order). |
6469 |
o change pickup file (to restart from old pickup, set usePickupBeforeC54=.T.) |
o change pickup file (to restart from old pickup, set usePickupBeforeC54=.T.) |
6470 |
o get a perfect restart when using RealFreshWaterFlux + NLFS (not finished) |
o get a perfect restart when using RealFreshWaterFlux + NLFS (not finished) |
6471 |
o update output of all exp. that use staggerTimeStep (except hs94.cs & 2D) |
o update output of all exp. that use staggerTimeStep (except hs94.cs & 2D) |
6472 |
+ internal_wave (shift in writing cg2d_ini_res) |
+ internal_wave (shift in writing cg2d_ini_res) |
6473 |
checkpoint54a_pre |
checkpoint54a_pre (2004/07/05) |
6474 |
|
|
6475 |
o require forcing_In_AB=.FALSE. and remove surfaceTendencyTice from pkg/seaice |
o require forcing_In_AB=.FALSE. and remove surfaceTendencyTice from pkg/seaice |
6476 |
- modified verification/lab_sea and natl_box_adjoint accordingly |
- modified verification/lab_sea and natl_box_adjoint accordingly |
6477 |
|
|
6478 |
checkpoint54 |
checkpoint54 (2004/07/02) |
6479 |
checkpoint53g_post |
checkpoint53g_post (2004/07/02) |
6480 |
o prepare splitting of thermodynamics: store convect.counter in common block |
o prepare splitting of thermodynamics: store convect.counter in common block |
6481 |
o store d.etaH/dt (instead of Div.hV) in common ; affects (truncation error) |
o store d.etaH/dt (instead of Div.hV) in common ; affects (truncation error) |
6482 |
output of: global_ocean.cs32x15, global_ocean_pressure & internal_wave |
output of: global_ocean.cs32x15, global_ocean_pressure & internal_wave |
6485 |
o separate Vert.Advec.Scheme from horizontal Advec.Scheme (T & S) |
o separate Vert.Advec.Scheme from horizontal Advec.Scheme (T & S) |
6486 |
o restore adjointability |
o restore adjointability |
6487 |
|
|
6488 |
checkpoint53f_post |
checkpoint53f_post (2004/06/25) |
6489 |
o modifications that affect AIM experiment results (update output.txt): |
o modifications that affect AIM experiment results (update output.txt): |
6490 |
- no advection of S at top interface Nr (pkg/generic_advdiff) |
- no advection of S at top interface Nr (pkg/generic_advdiff) |
6491 |
- air surf. temp: use lower value between T0 & T1 (phy_suflux_prep.F) |
- air surf. temp: use lower value between T0 & T1 (phy_suflux_prep.F) |
6498 |
o added rotating_tank experiment |
o added rotating_tank experiment |
6499 |
checkpoint53e_pre |
checkpoint53e_pre |
6500 |
|
|
6501 |
checkpoint53d_post |
checkpoint53d_post (2004/06/14) |
6502 |
o faulks upgraded: re-generate output.txt that have changed: |
o faulks upgraded: re-generate output.txt that have changed: |
6503 |
global_ocean.cs32x15(.thsice), global_ocean_ebm, lab_sea, natl_box |
global_ocean.cs32x15(.thsice), global_ocean_ebm, lab_sea, natl_box |
6504 |
o Added Bryan and Lewis, 1979, vertical diffusivity profile |
o Added Bryan and Lewis, 1979, vertical diffusivity profile |
6517 |
o fix mom_common/mom_*_sidedrag.F to recover numeric output prior to creation |
o fix mom_common/mom_*_sidedrag.F to recover numeric output prior to creation |
6518 |
of mom_common/ |
of mom_common/ |
6519 |
- simple re-arrangement of instructions within computing loop |
- simple re-arrangement of instructions within computing loop |
6520 |
checkpoint53d_pre |
checkpoint53d_pre (2004/05/21) |
6521 |
|
|
6522 |
checkpoint53c_post |
checkpoint53c_post (2004/05/21) |
6523 |
o new version of coupler for AIM+thSIce and Ocean models |
o new version of coupler for AIM+thSIce and Ocean models |
6524 |
- new fields (SSS,h_MixLayer ...) are exchanged through the coupler |
- new fields (SSS,h_MixLayer ...) are exchanged through the coupler |
6525 |
- land: change Evaporation of snow |
- land: change Evaporation of snow |
6536 |
* TLM OK |
* TLM OK |
6537 |
* ADM not sufficient accuracy yet (needs further testing) |
* ADM not sufficient accuracy yet (needs further testing) |
6538 |
|
|
6539 |
checkpoint53b_post |
checkpoint53b_post (2004/05/14) |
6540 |
o Commiting new energy balance model to repository |
o Commiting new energy balance model to repository |
6541 |
* package is pkg/ebm |
* package is pkg/ebm |
6542 |
* verif. is verification/global_ocean_ebm |
* verif. is verification/global_ocean_ebm |
6554 |
C by atmospheric eddy transports. |
C by atmospheric eddy transports. |
6555 |
C J. Climate 7(12), 1870-1882 |
C J. Climate 7(12), 1870-1882 |
6556 |
o Will need long integration testing. |
o Will need long integration testing. |
6557 |
checkpoint53b_pre |
checkpoint53b_pre (2004/05/14) |
6558 |
|
|
6559 |
o created pkg/mom_common in preparation for variable viscosity code |
o created pkg/mom_common in preparation for variable viscosity code |
6560 |
o renamed and split ini_mnc_io |
o renamed and split ini_mnc_io |
6562 |
o AIM using land: soil wetness availability account for snow |
o AIM using land: soil wetness availability account for snow |
6563 |
o added printMapIncludesZeros to EEPARMS namelist |
o added printMapIncludesZeros to EEPARMS namelist |
6564 |
|
|
6565 |
checkpoint53a_post |
checkpoint53a_post (2004/05/11) |
6566 |
o restore TAMC compatiility for exf_constants.h |
o restore TAMC compatiility for exf_constants.h |
6567 |
(no usage of _d in .h) |
(no usage of _d in .h) |
6568 |
o Additional storing in KPP in an attempt to fix |
o Additional storing in KPP in an attempt to fix |
6575 |
and hence gives results closer to that of Experiment 2. |
and hence gives results closer to that of Experiment 2. |
6576 |
Experiment 6 requires "SEAICE_initialHEFF=1" and is working once again. |
Experiment 6 requires "SEAICE_initialHEFF=1" and is working once again. |
6577 |
|
|
6578 |
checkpoint53 |
checkpoint53 (2004/05/06) |
6579 |
o stable checkpoint with up to date adjoint |
o stable checkpoint with up to date adjoint |
6580 |
TLM tests only run for 1st grdchk at the moment. Its unclear if |
TLM tests only run for 1st grdchk at the moment. Its unclear if |
6581 |
this is a code problem or a problem with resetting code for g_ |
this is a code problem or a problem with resetting code for g_ |
6585 |
o IBM and HPQ tests could not be run because NCAR (IBM) and NCCS (HPQ) |
o IBM and HPQ tests could not be run because NCAR (IBM) and NCCS (HPQ) |
6586 |
are both still in chaos following their security messes. |
are both still in chaos following their security messes. |
6587 |
|
|
6588 |
checkpoint52n_post |
checkpoint52n_post (2004/05/06) |
6589 |
o various build (mostly genmake2) changes including: |
o various build (mostly genmake2) changes including: |
6590 |
- ability to build/run more easily within Cygwin and MacOS X |
- ability to build/run more easily within Cygwin and MacOS X |
6591 |
- more complicated Makefiles with a stronger dependence on Gnu Make |
- more complicated Makefiles with a stronger dependence on Gnu Make |
6616 |
- maintain snow precipitation unchanged (even if Tsf >=0). |
- maintain snow precipitation unchanged (even if Tsf >=0). |
6617 |
both affect global_ocean.cs32x15/(.thsice) results ; update output.txt.thsice |
both affect global_ocean.cs32x15/(.thsice) results ; update output.txt.thsice |
6618 |
|
|
6619 |
checkpoint52m_post |
checkpoint52m_post (2004/04/18) |
6620 |
o commented out call to cal_GetMonthsRec in swfrac.F and added some comments; |
o commented out call to cal_GetMonthsRec in swfrac.F and added some comments; |
6621 |
this does not change any of the results, because myIter=0 in swfrac always |
this does not change any of the results, because myIter=0 in swfrac always |
6622 |
lead to jwtype=2 (the default anyway), but the call makes little sense |
lead to jwtype=2 (the default anyway), but the call makes little sense |
6648 |
o Added functionality to grdchk: |
o Added functionality to grdchk: |
6649 |
pick global i,j,k position (or nearest wet) where to perform check. |
pick global i,j,k position (or nearest wet) where to perform check. |
6650 |
|
|
6651 |
checkpoint52l_post |
checkpoint52l_post (2004/03/11) |
6652 |
o new land formulation: |
o new land formulation: |
6653 |
a) use ground enthalpy as prognostic variable to ensure exact |
a) use ground enthalpy as prognostic variable to ensure exact |
6654 |
energy conservation. |
energy conservation. |
6659 |
a) Treat separately land / ocean / sea-ice surface fluxes |
a) Treat separately land / ocean / sea-ice surface fluxes |
6660 |
to allow implicit computation of land & sea-ice surface temp. |
to allow implicit computation of land & sea-ice surface temp. |
6661 |
b) add snow precipitation. |
b) add snow precipitation. |
6662 |
checkpoint52l_pre |
checkpoint52l_pre (2004/03/11) |
6663 |
|
|
6664 |
o fix problem (when 1 tile is empty) in min/max monitor. |
o fix problem (when 1 tile is empty) in min/max monitor. |
6665 |
o fix bug in timeAve (u,vZetatave in common block) |
o fix bug in timeAve (u,vZetatave in common block) |
6672 |
o aim.5l_cs: modify sea-ice fraction input file ; update output |
o aim.5l_cs: modify sea-ice fraction input file ; update output |
6673 |
o exf: Adding simple range check routine for exf fields after read |
o exf: Adding simple range check routine for exf fields after read |
6674 |
|
|
6675 |
checkpoint52k_post |
checkpoint52k_post (2004/02/23) |
6676 |
o removed top-level directory "diags" |
o removed top-level directory "diags" |
6677 |
- we migrated these functions to pkg/timeave a long time ago |
- we migrated these functions to pkg/timeave a long time ago |
6678 |
o fixed bug introduced in pkg/monitor |
o fixed bug introduced in pkg/monitor |
6685 |
taveFreq, dumpFreq, pChkptFreq |
taveFreq, dumpFreq, pChkptFreq |
6686 |
o MAIN and ECCO differentiability restored |
o MAIN and ECCO differentiability restored |
6687 |
|
|
6688 |
checkpoint52j_post |
checkpoint52j_post (2004/02/18) |
6689 |
o fix nchklev in tamc.h for global_ocean... |
o fix nchklev in tamc.h for global_ocean... |
6690 |
o Bringing flow and store directives up-to-date |
o Bringing flow and store directives up-to-date |
6691 |
o Really weird thing! |
o Really weird thing! |
6693 |
starttime, niter0, instead of mytime, myiter, screws up the adjoint: |
starttime, niter0, instead of mytime, myiter, screws up the adjoint: |
6694 |
TAF places a faulty re-call of initialise_varia |
TAF places a faulty re-call of initialise_varia |
6695 |
after cost_final call which should not be there! |
after cost_final call which should not be there! |
6696 |
checkpoint52j_pre |
checkpoint52j_pre (2004/02/03) |
6697 |
|
|
6698 |
o tweaked pkg/mdsio/mdsio_readfield.F to have more useful logic and |
o tweaked pkg/mdsio/mdsio_readfield.F to have more useful logic and |
6699 |
error messages |
error messages |
6710 |
mon_vort3.F to make exch2 friendly with >1 tile per cube face |
mon_vort3.F to make exch2 friendly with >1 tile per cube face |
6711 |
o limit timeave output for hi-res integrations |
o limit timeave output for hi-res integrations |
6712 |
|
|
6713 |
checkpoint52i_post |
checkpoint52i_post (2004/01/21) |
6714 |
o removed CPP_EEOPTIONS.h from verification/*/code |
o removed CPP_EEOPTIONS.h from verification/*/code |
6715 |
o updated the tiling for global_ocean_pressure |
o updated the tiling for global_ocean_pressure |
6716 |
checkpoint52i_pre |
checkpoint52i_pre (2004/01/20) |
6717 |
|
|
6718 |
o update aim.5l_LatLon using the standard aim_v23 pkg (instead of |
o update aim.5l_LatLon using the standard aim_v23 pkg (instead of |
6719 |
the old pkg/aim). |
the old pkg/aim). |
6720 |
|
|
6721 |
checkpoint52h_pre |
checkpoint52h_pre (2004/01/20) |
6722 |
o shortened offending lines in exch2_send_rx?.template |
o shortened offending lines in exch2_send_rx?.template |
6723 |
o modified W2_EXCH2_TOPOLOGY.h to reflect current topology generator |
o modified W2_EXCH2_TOPOLOGY.h to reflect current topology generator |
6724 |
o genmake2: add build & execute test for NetCDF code |
o genmake2: add build & execute test for NetCDF code |
6729 |
metric terms are ignored and it is assumed that |
metric terms are ignored and it is assumed that |
6730 |
there is no sea-ice on cube faces 1, 2, 4, and 5. |
there is no sea-ice on cube faces 1, 2, 4, and 5. |
6731 |
|
|
6732 |
checkpoint52f_post |
checkpoint52f_post (2004/01/09) |
6733 |
o added exch2 cube routines to pkg/exch2 |
o added exch2 cube routines to pkg/exch2 |
6734 |
o modified hs94.cs-32x32x5 to use it |
o modified hs94.cs-32x32x5 to use it |
6735 |
o added new grid files to hs94.cs-32x32x5 |
o added new grid files to hs94.cs-32x32x5 |
6736 |
checkpoint52f_pre |
checkpoint52f_pre (2004/01/07) |
6737 |
|
|
6738 |
checkpoint52e_post |
checkpoint52e_post (2004/01/07) |
6739 |
o first attempt to solve vertical advection (momemtum & T,S) Implicitly |
o first attempt to solve vertical advection (momemtum & T,S) Implicitly |
6740 |
for now, only implemented with Lax-Wendroff (tracer) and VectInv (mom) |
for now, only implemented with Lax-Wendroff (tracer) and VectInv (mom) |
6741 |
o step.1 : rewrite (as in MultiDimAdvec) explicit tracer stepping (gad_calc_rhs.F) |
o step.1 : rewrite (as in MultiDimAdvec) explicit tracer stepping (gad_calc_rhs.F) |
6743 |
o Implic. vert. advect. implemented with flux-limiter, c2, u3 and c4 scheme. |
o Implic. vert. advect. implemented with flux-limiter, c2, u3 and c4 scheme. |
6744 |
o update output (gad_calc_rhs.F changes affect truncation error) of exp: |
o update output (gad_calc_rhs.F changes affect truncation error) of exp: |
6745 |
front_relax, global_ocean .cs32x15 & _pressure, internal_wave, lab_sea, natl_box |
front_relax, global_ocean .cs32x15 & _pressure, internal_wave, lab_sea, natl_box |
6746 |
checkpoint52e_pre |
checkpoint52e_pre (2004/01/02) |
6747 |
|
|
6748 |
o fix bug in impldiff when Nr=1 or Nr=2. |
o fix bug in impldiff when Nr=1 or Nr=2. |
6749 |
o change the albedo in pkg/thsice (as GISS model); update output_thsice.txt |
o change the albedo in pkg/thsice (as GISS model); update output_thsice.txt |
6754 |
o eesupp/inc/EEPARAMS.h: MAX_NO_PROCS=1024 |
o eesupp/inc/EEPARAMS.h: MAX_NO_PROCS=1024 |
6755 |
o pkg/cal/cal_toseconds.F fix for long (>60 years) integrations |
o pkg/cal/cal_toseconds.F fix for long (>60 years) integrations |
6756 |
|
|
6757 |
checkpoint52d_post |
checkpoint52d_post (2003/12/16) |
6758 |
o re-tiled many expts to allow comparison in multi-processor mode |
o re-tiled many expts to allow comparison in multi-processor mode |
6759 |
- updated output accordingly |
- updated output accordingly |
6760 |
- changed hs94.128x64x5 to use intial T from file rather than use the |
- changed hs94.128x64x5 to use intial T from file rather than use the |
6783 |
o new verification experiment, cpl_aim+ocn: |
o new verification experiment, cpl_aim+ocn: |
6784 |
coupled ocean - AIM atmosphere on cs32 grid. |
coupled ocean - AIM atmosphere on cs32 grid. |
6785 |
|
|
6786 |
checkpoint52d_pre |
checkpoint52d_pre (2003/12/06) |
6787 |
o surface flux time-av diagnostic modified for NLFS & RealFreshWater |
o surface flux time-av diagnostic modified for NLFS & RealFreshWater |
6788 |
o add call to AIM pendant S/R in external_forcing & external_fields_load.F |
o add call to AIM pendant S/R in external_forcing & external_fields_load.F |
6789 |
|
|
6790 |
checkpoint52c_post |
checkpoint52c_post (2003/11/25) |
6791 |
o Fixing OPTIONS files for use of exf: |
o Fixing OPTIONS files for use of exf: |
6792 |
- ALLOW_ECCO not needed |
- ALLOW_ECCO not needed |
6793 |
- ECCO_CPPOPTIONS.h should not be included from |
- ECCO_CPPOPTIONS.h should not be included from |
6801 |
o modified STOREs in GAD_ADVECTION |
o modified STOREs in GAD_ADVECTION |
6802 |
o corrected key comp. for passkey |
o corrected key comp. for passkey |
6803 |
|
|
6804 |
checkpoint52b_post |
checkpoint52b_post (2003/11/23) |
6805 |
o new version: "thsice" of thermodynamic sea-ice pkg: |
o new version: "thsice" of thermodynamic sea-ice pkg: |
6806 |
- only 1 call from "forward_step"; conserve energy, fresh-water & salt. |
- only 1 call from "forward_step"; conserve energy, fresh-water & salt. |
6807 |
- modify fluxes but do not change theta directly; |
- modify fluxes but do not change theta directly; |
6809 |
- add forcing fields + data files in global_ocean.cs32x15/inp_thsice |
- add forcing fields + data files in global_ocean.cs32x15/inp_thsice |
6810 |
+ output_thsice.txt to test thsice & bulk_force pkgs. |
+ output_thsice.txt to test thsice & bulk_force pkgs. |
6811 |
o put back grid & coriolis monitor output. |
o put back grid & coriolis monitor output. |
6812 |
checkpoint52b_pre |
checkpoint52b_pre (2003/11/23) |
6813 |
|
|
6814 |
o call "do_the_model_io" at the beginning (=> dump initial state) |
o call "do_the_model_io" at the beginning (=> dump initial state) |
6815 |
o use rhoConstFresh to define convertEmP2rUnit (was done only in ocean-P) |
o use rhoConstFresh to define convertEmP2rUnit (was done only in ocean-P) |
6819 |
o default tamc.h in pkg/autodiff supposed to crash |
o default tamc.h in pkg/autodiff supposed to crash |
6820 |
to ensure proper customization |
to ensure proper customization |
6821 |
|
|
6822 |
checkpoint52a_post |
checkpoint52a_post (2003/11/17) |
6823 |
o modifications to make FREEZE (_SURFACE) flux visible to pkg/kpp |
o modifications to make FREEZE (_SURFACE) flux visible to pkg/kpp |
6824 |
- moved surfaceTendencyTice from pkg/seaice to main code |
- moved surfaceTendencyTice from pkg/seaice to main code |
6825 |
- subroutine FREEZE_SURFACE now limits only surface temperature |
- subroutine FREEZE_SURFACE now limits only surface temperature |
6834 |
snapshot file was missing some ad-variables, |
snapshot file was missing some ad-variables, |
6835 |
but no warning issued by TAF |
but no warning issued by TAF |
6836 |
|
|
6837 |
checkpoint52a_pre |
checkpoint52a_pre (2003/11/12) |
6838 |
o some bug fixes for #undef REAL4_IS_SLOW |
o some bug fixes for #undef REAL4_IS_SLOW |
6839 |
|
|
6840 |
checkpoint52 = ecco_c52_e35 |
checkpoint52 = ecco_c52_e35 |
6841 |
o after testing adjoints of checkpoint51u_post |
o after testing adjoints of checkpoint51u_post |
6842 |
|
|
6843 |
checkpoint51u_post |
checkpoint51u_post (2003/11/06) |
6844 |
o this is the post-merge tag of the ecco-branch |
o this is the post-merge tag of the ecco-branch |
6845 |
(needs another clean checkout and re-testing) |
(needs another clean checkout and re-testing) |
6846 |
o various natl_box_adjoint configs and results |
o various natl_box_adjoint configs and results |
6855 |
(new namelist ecco_cost_nml) |
(new namelist ecco_cost_nml) |
6856 |
o in ctrl/ cleaned some cross-dependencies and updated CPP options |
o in ctrl/ cleaned some cross-dependencies and updated CPP options |
6857 |
|
|
6858 |
checkpoint51t_post |
checkpoint51t_post (2003/11/04) |
6859 |
o this is the pre-merge tag of the ecco-branch |
o this is the pre-merge tag of the ecco-branch |
6860 |
|
|
6861 |
checkpoint51s_post |
checkpoint51s_post (2003/11/04) |
6862 |
o cleanup: removed various obsolete #define-s |
o cleanup: removed various obsolete #define-s |
6863 |
o pkg/grdchk |
o pkg/grdchk |
6864 |
- renamed 'ph-grd 3' to 'grad-res' |
- renamed 'ph-grd 3' to 'grad-res' |
6867 |
- additional high-precision output for testreport |
- additional high-precision output for testreport |
6868 |
(grep for 'precision_grdchk_result') |
(grep for 'precision_grdchk_result') |
6869 |
|
|
6870 |
checkpoint51r_post |
checkpoint51r_post (2003/11/03) |
6871 |
o cleaned up or removed CPP_OPTIONS.h files |
o cleaned up or removed CPP_OPTIONS.h files |
6872 |
o updated results for some of the tests to reflect the new |
o updated results for some of the tests to reflect the new |
6873 |
optfiles (-ieee: -O0 instead of -O3) |
optfiles (-ieee: -O0 instead of -O3) |
6874 |
|
|
6875 |
checkpoint51q_post |
checkpoint51q_post (2003/10/30) |
6876 |
o cd_code: |
o cd_code: |
6877 |
- moved cd_scheme.F -> cd_code_scheme.F |
- moved cd_scheme.F -> cd_code_scheme.F |
6878 |
- separate read_checkpoint from cd_code_ini_vars.F |
- separate read_checkpoint from cd_code_ini_vars.F |
6888 |
- confined inclusion of AD_CONFIG.h to where necessary. |
- confined inclusion of AD_CONFIG.h to where necessary. |
6889 |
o genmake2: changed AD dependencies from SRCFILES to AD_FILES |
o genmake2: changed AD dependencies from SRCFILES to AD_FILES |
6890 |
|
|
6891 |
checkpoint51p_post |
checkpoint51p_post (2003/10/30) |
6892 |
o create initial cd_code package |
o create initial cd_code package |
6893 |
- WARNING: the initialization of fields within packages |
- WARNING: the initialization of fields within packages |
6894 |
is broken because INI_FIELDS (where READ_CHECKPOINT is |
is broken because INI_FIELDS (where READ_CHECKPOINT is |
6903 |
o cleanup verification/*/code/GMREDI_OPTIONS.h |
o cleanup verification/*/code/GMREDI_OPTIONS.h |
6904 |
o cleanup testreport |
o cleanup testreport |
6905 |
|
|
6906 |
checkpoint51o_post |
checkpoint51o_post (2003/10/27) |
6907 |
o bringing AD-related verif's up to date with genmake2 |
o bringing AD-related verif's up to date with genmake2 |
6908 |
- carbon/ |
- carbon/ |
6909 |
- global_ocean.90x40x15/ |
- global_ocean.90x40x15/ |
6924 |
o helping TAF to recognize dependency on kUp for |
o helping TAF to recognize dependency on kUp for |
6925 |
fVerU, fVerV |
fVerU, fVerV |
6926 |
o Replacing delZ by delR in pkg/ctrl/ |
o Replacing delZ by delR in pkg/ctrl/ |
6927 |
checkpoint51o_pre |
checkpoint51o_pre (2003/10/24) |
6928 |
|
|
6929 |
o undid all of cp51 pending some cleanups and discussion |
o undid all of cp51 pending some cleanups and discussion |
6930 |
o added the [#include "AD_CONFIG.h"] statement to all files that need |
o added the [#include "AD_CONFIG.h"] statement to all files that need |
6932 |
o re-worked the build logic in genmake2 to support AD_CONFIG.h |
o re-worked the build logic in genmake2 to support AD_CONFIG.h |
6933 |
o removed tools/genmake since it no longer works |
o removed tools/genmake since it no longer works |
6934 |
|
|
6935 |
checkpoint51n_post |
checkpoint51n_post (2003/10/23) |
6936 |
o modifications to make FREEZE flux visible to pkg/kpp |
o modifications to make FREEZE flux visible to pkg/kpp |
6937 |
- moved surfaceTendencyTice from pkg/seaice to main code |
- moved surfaceTendencyTice from pkg/seaice to main code |
6938 |
- FREEZE & EXTERNAL_FORCING_SURF moved to FORWARD_STEP |
- FREEZE & EXTERNAL_FORCING_SURF moved to FORWARD_STEP |
6941 |
global_ocean.cs32x15, and global_with_exf) |
global_ocean.cs32x15, and global_with_exf) |
6942 |
o added surface flux output variables to TIMEAVE_STATVARS |
o added surface flux output variables to TIMEAVE_STATVARS |
6943 |
|
|
6944 |
checkpoint51n_pre |
checkpoint51n_pre (2003/10/23) |
6945 |
o added "#undef ALLOW_USE_MPI" support to eesupp/src/gather_2d.F |
o added "#undef ALLOW_USE_MPI" support to eesupp/src/gather_2d.F |
6946 |
o added [#include "AD_CONFIG.h"] to all files that use the following |
o added [#include "AD_CONFIG.h"] to all files that use the following |
6947 |
defines: |
defines: |
6949 |
- ALLOW_TANGENTLINEAR_RUN |
- ALLOW_TANGENTLINEAR_RUN |
6950 |
- ALLOW_ECCO_OPTIMIZATION |
- ALLOW_ECCO_OPTIMIZATION |
6951 |
|
|
6952 |
checkpoint51m_post |
checkpoint51m_post (2003/10/21) |
6953 |
o incorporating changes to get TAMC/TAF working in genmake2 |
o incorporating changes to get TAMC/TAF working in genmake2 |
6954 |
- added new TAMC/TAF targets to the Makefile |
- added new TAMC/TAF targets to the Makefile |
6955 |
- various cleanups related to package handling |
- various cleanups related to package handling |
6956 |
- these changes should have no impact on the forward model |
- these changes should have no impact on the forward model |
6957 |
|
|
6958 |
checkpoint51l_post |
checkpoint51l_post (2003/10/20) |
6959 |
o changes to pkg/cal and pkg/exf that allow and speed-up long integrations |
o changes to pkg/cal and pkg/exf that allow and speed-up long integrations |
6960 |
- faster algorithm for cal_addtime.F |
- faster algorithm for cal_addtime.F |
6961 |
- higher precision arithmetic, where needed |
- higher precision arithmetic, where needed |
6962 |
- pkg/exf *startdate variables changed from calendar date to |
- pkg/exf *startdate variables changed from calendar date to |
6963 |
model integration time |
model integration time |
6964 |
|
|
6965 |
checkpoint51l_pre |
checkpoint51l_pre (2003/10/17) |
6966 |
o add salt flux to forcing fields (used when salty sea-ice forms or melts) |
o add salt flux to forcing fields (used when salty sea-ice forms or melts) |
6967 |
o enable to apply restoring on S & T only in a latitude band. |
o enable to apply restoring on S & T only in a latitude band. |
6968 |
o update output (external_forcing_surf modif. change truncation errors) |
o update output (external_forcing_surf modif. change truncation errors) |
6969 |
global_ocean.cs32x15, global_ocean_pressure, lab_sea, natl_box |
global_ocean.cs32x15, global_ocean_pressure, lab_sea, natl_box |
6970 |
|
|
6971 |
checkpoint51k_post |
checkpoint51k_post (2003/10/16) |
6972 |
o change default to: useNHMTerms=.FALSE. |
o change default to: useNHMTerms=.FALSE. |
6973 |
- new output.txt for atmos. exp (NHMTerms were wrong but now turned off): |
- new output.txt for atmos. exp (NHMTerms were wrong but now turned off): |
6974 |
adjustment.128x64x1, aim.5l_Eq_Ch, aim.5l_LatLon, hs94.128x64x5, hs94.1x64x5 |
adjustment.128x64x1, aim.5l_Eq_Ch, aim.5l_LatLon, hs94.128x64x5, hs94.1x64x5 |
6982 |
removed the #include "PACKAGES_CONFIG.h" from it |
removed the #include "PACKAGES_CONFIG.h" from it |
6983 |
o fix a bug in mom_fluxform (from chk51j_post) |
o fix a bug in mom_fluxform (from chk51j_post) |
6984 |
|
|
6985 |
checkpoint51j_post |
checkpoint51j_post (2003/10/10) |
6986 |
o Added some AD-related initialisations in mom_vecinv/ mom_fluxform/ |
o Added some AD-related initialisations in mom_vecinv/ mom_fluxform/ |
6987 |
o adjusted some flow directives (dynamics, thermodynamics) |
o adjusted some flow directives (dynamics, thermodynamics) |
6988 |
o added cubed-sphere case to test cost function |
o added cubed-sphere case to test cost function |
6996 |
- pkg_ad_diff.list |
- pkg_ad_diff.list |
6997 |
- pkg_ad_check_lev?_dir.h |
- pkg_ad_check_lev?_dir.h |
6998 |
|
|
6999 |
checkpoint51i_post |
checkpoint51i_post (2003/10/09) |
7000 |
o merge of the branch-genmake2 |
o merge of the branch-genmake2 |
7001 |
- knowingly breaks the older genmake |
- knowingly breaks the older genmake |
7002 |
- automatic generation of all ALLOW_${PKG_NAME} defines |
- automatic generation of all ALLOW_${PKG_NAME} defines |
7003 |
- new testreport supersedes older testscript |
- new testreport supersedes older testscript |
7004 |
o large number of package inclusion and header cleanups |
o large number of package inclusion and header cleanups |
7005 |
checkpoint51i_pre |
checkpoint51i_pre (2003/10/08) |
7006 |
|
|
7007 |
o new output for adjoin of global ocean vector invariant |
o new output for adjoin of global ocean vector invariant |
7008 |
o fix for checkpoint of thermodynamic seaice and bulk_force |
o fix for checkpoint of thermodynamic seaice and bulk_force |
7014 |
o modifications to clean up dic pkg |
o modifications to clean up dic pkg |
7015 |
o add pkg/cfc |
o add pkg/cfc |
7016 |
|
|
7017 |
checkpoint51g_post |
checkpoint51g_post (2003/10/02) |
7018 |
o provide links for ARPACK and ADM*TLM |
o provide links for ARPACK and ADM*TLM |
7019 |
o start removing verification/vero/ |
o start removing verification/vero/ |
7020 |
o update AD-related stuff |
o update AD-related stuff |
7022 |
o adding to verification/global_ocean.90x40x15/ adjoint of |
o adding to verification/global_ocean.90x40x15/ adjoint of |
7023 |
vector invariant setup |
vector invariant setup |
7024 |
|
|
7025 |
checkpoint51f_post |
checkpoint51f_post (2003/10/02) |
7026 |
o update advect_xz/output.txt (left from chekpoint50f_pre, ini_vel modif) |
o update advect_xz/output.txt (left from chekpoint50f_pre, ini_vel modif) |
7027 |
o Mods and bug fixes to pkg/cal, pkg/exf, etc., needed for computation |
o Mods and bug fixes to pkg/cal, pkg/exf, etc., needed for computation |
7028 |
of tracer Green's fucntions for ocean inversion project. |
of tracer Green's fucntions for ocean inversion project. |
7029 |
|
|
7030 |
checkpoint51f_pre |
checkpoint51f_pre (2003/08/07) |
7031 |
o Added on-the-fly spatial interpolation capability |
o Added on-the-fly spatial interpolation capability |
7032 |
"USE_EXF_INTERPOLATION" to pkg/exf. |
"USE_EXF_INTERPOLATION" to pkg/exf. |
7033 |
- This is a temporary Cartesian-grid hack until |
- This is a temporary Cartesian-grid hack until |
7039 |
and pkg/kpp/kpp_transport_ptr.F for dealing with tracer |
and pkg/kpp/kpp_transport_ptr.F for dealing with tracer |
7040 |
non-local transport term. |
non-local transport term. |
7041 |
|
|
7042 |
checkpoint51e_post |
checkpoint51e_post (2003/08/03) |
7043 |
o pkg/mom_vecinv: |
o pkg/mom_vecinv: |
7044 |
- changes related to hFac: use S/R from aim.5l_cs/code (coriolis & vort.advec) |
- changes related to hFac: use S/R from aim.5l_cs/code (coriolis & vort.advec) |
7045 |
- add time-ave diagnostic of vorticity advection. |
- add time-ave diagnostic of vorticity advection. |
7049 |
o land pkg: read initial state from files. |
o land pkg: read initial state from files. |
7050 |
o AIM : add stratospheric drag in the upper level |
o AIM : add stratospheric drag in the upper level |
7051 |
|
|
7052 |
checkpoint51d_post |
checkpoint51d_post (2003/07/18) |
7053 |
o change function ILNBLNK (=> last non-blank char.) to return zero |
o change function ILNBLNK (=> last non-blank char.) to return zero |
7054 |
(instead of the string length) when the string. char is empty |
(instead of the string length) when the string. char is empty |
7055 |
o fix bug in dxV,dyU definition of cubed-sphere grid (ini_curvilinear_grid) |
o fix bug in dxV,dyU definition of cubed-sphere grid (ini_curvilinear_grid) |
7062 |
- new active_file_loc... and mdsio_..._loc routines |
- new active_file_loc... and mdsio_..._loc routines |
7063 |
- affected packages: autodiff, ctrl, grdchk, mdsio |
- affected packages: autodiff, ctrl, grdchk, mdsio |
7064 |
|
|
7065 |
checkpoint51c_post |
checkpoint51c_post (2003/07/08) |
7066 |
o introducing integer flag debugLevel |
o introducing integer flag debugLevel |
7067 |
- debLevZero: suppress all output |
- debLevZero: suppress all output |
7068 |
- debLevA: standard |
- debLevA: standard |
7085 |
- checked tapelev/comlev recomputations: OK |
- checked tapelev/comlev recomputations: OK |
7086 |
<<<checkpoint51b_pre |
<<<checkpoint51b_pre |
7087 |
|
|
7088 |
checkpoint51a_post |
checkpoint51a_post (2003/06/25) |
7089 |
o added code for biogeochemistry package |
o added code for biogeochemistry package |
7090 |
- new pkgs: dic, gchem |
- new pkgs: dic, gchem |
7091 |
- new subroutine in ptracers |
- new subroutine in ptracers |
7092 |
o modify code for biogeo packages |
o modify code for biogeo packages |
7093 |
- in model/src and pkg/ptracers |
- in model/src and pkg/ptracers |
7094 |
|
|
7095 |
checkpoint51 |
checkpoint51 (2003/06/24) |
7096 |
o merged improved packages from ecco-branch (ecco_c51_e34) to MAIN |
o merged improved packages from ecco-branch (ecco_c51_e34) to MAIN |
7097 |
- autodiff, ctrl, exf, grdchk, seaice |
- autodiff, ctrl, exf, grdchk, seaice |
7098 |
kept separate packages |
kept separate packages |
7100 |
o updating verification/internal_wave, verification/lab_sea |
o updating verification/internal_wave, verification/lab_sea |
7101 |
(all verif's pass on faulks.lcs.mit.edu RH7.3, g77) |
(all verif's pass on faulks.lcs.mit.edu RH7.3, g77) |
7102 |
|
|
7103 |
checkpoint50i_post |
checkpoint50i_post (2003/06/23) |
7104 |
o Preparing next differentiable checkpoint and sync |
o Preparing next differentiable checkpoint and sync |
7105 |
of MAIN vs. ecco-branch |
of MAIN vs. ecco-branch |
7106 |
- 1st step: this one is differentiable |
- 1st step: this one is differentiable |
7107 |
- 2nd step: next(! not this) checkpoint will have updated packages |
- 2nd step: next(! not this) checkpoint will have updated packages |
7108 |
from ecco-branch) |
from ecco-branch) |
7109 |
|
|
7110 |
checkpoint50h_post |
checkpoint50h_post (2003/06/20) |
7111 |
o new package "land": provide surface BC for AIM. |
o new package "land": provide surface BC for AIM. |
7112 |
o pkg/ptracers: apply exchange to all tracers after reading a pickup. |
o pkg/ptracers: apply exchange to all tracers after reading a pickup. |
7113 |
o AIM: use true log-P extrapolation for near surface temp (= as in |
o AIM: use true log-P extrapolation for near surface temp (= as in |
7116 |
o somewhat cleaned package initialisation sequence for |
o somewhat cleaned package initialisation sequence for |
7117 |
ctrl/ cost/ ecco/ in packages_... routines |
ctrl/ cost/ ecco/ in packages_... routines |
7118 |
|
|
7119 |
checkpoint50g_post |
checkpoint50g_post (2003/05/23) |
7120 |
o merged with release1_p17 (pkg/seaice and verification/lab_sea) |
o merged with release1_p17 (pkg/seaice and verification/lab_sea) |
7121 |
- added SEAICE_MULTILEVEL for 8-category sea-ice thermodynamics |
- added SEAICE_MULTILEVEL for 8-category sea-ice thermodynamics |
7122 |
- LSR sea-ice dynamic solver moved to SouthWest B-grid location and |
- LSR sea-ice dynamic solver moved to SouthWest B-grid location and |
7123 |
made the default because of faster convergence than ADI |
made the default because of faster convergence than ADI |
7124 |
|
|
7125 |
checkpoint50f_post |
checkpoint50f_post (2003/05/23) |
7126 |
o exf totally restructured |
o exf totally restructured |
7127 |
- replaced all exf_set_ routines by one generic exf_set_gen.F |
- replaced all exf_set_ routines by one generic exf_set_gen.F |
7128 |
and made sure it's still differentiable |
and made sure it's still differentiable |
7130 |
- exf_inscal_/exf_outscal_ suffixes consistent with field names |
- exf_inscal_/exf_outscal_ suffixes consistent with field names |
7131 |
- updated adjoint/makefile and relevant verif. accordingly |
- updated adjoint/makefile and relevant verif. accordingly |
7132 |
|
|
7133 |
checkpoint50f_pre |
checkpoint50f_pre (2003/05/23) |
7134 |
o AIM: near surface temp evaluated from Pot.Temp: fixed for Part Cell ; |
o AIM: near surface temp evaluated from Pot.Temp: fixed for Part Cell ; |
7135 |
+ change Evap over land. (update aim.5l_cs output) |
+ change Evap over land. (update aim.5l_cs output) |
7136 |
o added missing .cvsignores and made uniform across expts |
o added missing .cvsignores and made uniform across expts |
7140 |
o new fn in pkg/monitor to stop model if solution grows too big |
o new fn in pkg/monitor to stop model if solution grows too big |
7141 |
o removed lots of single quotes from comments |
o removed lots of single quotes from comments |
7142 |
|
|
7143 |
checkpoint50e_post |
checkpoint50e_post (2003/05/14) |
7144 |
o make KPP work with PTRACERS |
o make KPP work with PTRACERS |
7145 |
- fix gad_calc_rhs to call new routine kpp_transport_ptr, which is |
- fix gad_calc_rhs to call new routine kpp_transport_ptr, which is |
7146 |
nearly a copy of kpp_transport_s |
nearly a copy of kpp_transport_s |
7147 |
- there is no analogue to SurfaceTendencyS, so I have to use |
- there is no analogue to SurfaceTendencyS, so I have to use |
7148 |
gPtr(of the surface layer) instead |
gPtr(of the surface layer) instead |
7149 |
o add a new platform SunFire+mpi (SunFire 15000) to genmake |
o add a new platform SunFire+mpi (SunFire 15000) to genmake |
7150 |
checkpoint50e_pre |
checkpoint50e_pre (2003/05/13) |
7151 |
|
|
7152 |
checkpoint50d_post |
checkpoint50d_post (2003/05/13) |
7153 |
o change kpp output from multiple-record state files to single-record state |
o change kpp output from multiple-record state files to single-record state |
7154 |
files analogous to write_state.F |
files analogous to write_state.F |
7155 |
o reduce the output frequency of cg3d-related stuff to the monitor frequency, |
o reduce the output frequency of cg3d-related stuff to the monitor frequency, |
7156 |
analogous to the cg2d-related output. |
analogous to the cg2d-related output. |
7157 |
o fix small problem with in ptracers_write_checkpoint.F: len(suff)=512, |
o fix small problem with in ptracers_write_checkpoint.F: len(suff)=512, |
7158 |
so that writing to internal file fn (with length 512) fails. |
so that writing to internal file fn (with length 512) fails. |
7159 |
checkpoint50d_pre |
checkpoint50d_pre (2003/05/12) |
7160 |
|
|
7161 |
checkpoint50c_post |
checkpoint50c_post (2003/05/12) |
7162 |
o fix problem in ini_procs.F when using MPI (was there since checkpoint48f) |
o fix problem in ini_procs.F when using MPI (was there since checkpoint48f) |
7163 |
o add monitor diagnostic of vorticity (mon_vort3.F) and potential energy. |
o add monitor diagnostic of vorticity (mon_vort3.F) and potential energy. |
7164 |
o add time-average diagnostic of U*V and vertical diffusive flux for theta. |
o add time-average diagnostic of U*V and vertical diffusive flux for theta. |
7165 |
o bug fixed in convective adjustment diagnostic (multi-tile set-up). |
o bug fixed in convective adjustment diagnostic (multi-tile set-up). |
7166 |
o 4th Order Adv scheme: return to previous (c40pre7) masking near boundaries. |
o 4th Order Adv scheme: return to previous (c40pre7) masking near boundaries. |
7167 |
|
|
7168 |
checkpoint50c_pre |
checkpoint50c_pre (2003/04/30) |
7169 |
Merging from release1_p13: |
Merging from release1_p13: |
7170 |
o bug fix for pkg/seaice dynamic solver |
o bug fix for pkg/seaice dynamic solver |
7171 |
o Added SEAICE_initialHEFF to pkg/seaice |
o Added SEAICE_initialHEFF to pkg/seaice |
7172 |
|
|
7173 |
checkpoint50b_post |
checkpoint50b_post (2003/04/17) |
7174 |
o store u*,v* in gU,V instead of in guNm1,gvNm1 |
o store u*,v* in gU,V instead of in guNm1,gvNm1 |
7175 |
o in order to put the momForcing out of the Adams-Bashforth: |
o in order to put the momForcing out of the Adams-Bashforth: |
7176 |
move forcing & CD-scheme calls from mom_fluxform & mom_vecinv |
move forcing & CD-scheme calls from mom_fluxform & mom_vecinv |
7179 |
o re-generate output for highly sensitive test-exp: |
o re-generate output for highly sensitive test-exp: |
7180 |
global_ocean_pressure, ideal_2D_oce, lab_sea, natl_box |
global_ocean_pressure, ideal_2D_oce, lab_sea, natl_box |
7181 |
|
|
7182 |
checkpoint50b_pre |
checkpoint50b_pre (2003/04/17) |
7183 |
o restore the use of momAdvection & useCoriolis flags (mom_vecinv) |
o restore the use of momAdvection & useCoriolis flags (mom_vecinv) |
7184 |
o corrected CPP option mismatch in exf_Bulk... functions for case |
o corrected CPP option mismatch in exf_Bulk... functions for case |
7185 |
#define ALLOW_ATM_WIND && #undef ALLOW_ATM_TEMP |
#define ALLOW_ATM_WIND && #undef ALLOW_ATM_TEMP |
7186 |
|
|
7187 |
checkpoint50a_post |
checkpoint50a_post (2003/03/21) |
7188 |
o Bug fix for merging between c50 and KPP. |
o Bug fix for merging between c50 and KPP. |
7189 |
ikey was passed from thermodynamics to kpp_calc via |
ikey was passed from thermodynamics to kpp_calc via |
7190 |
common block rather than being recomputed in kpp_calc, |
common block rather than being recomputed in kpp_calc, |
7191 |
in contradiction with new key itdkey. |
in contradiction with new key itdkey. |
7192 |
New key ikppkey created, and tamc.h headers updated. |
New key ikppkey created, and tamc.h headers updated. |
7193 |
|
|
7194 |
checkpoint50 |
checkpoint50 (2003/03/08) |
7195 |
- 2nd step of merge with ecco-branch: |
- 2nd step of merge with ecco-branch: |
7196 |
merge changes in ecco-branch back into main trunk |
merge changes in ecco-branch back into main trunk |
7197 |
- bug fix in find_alpha |
- bug fix in find_alpha |
7199 |
- avoid iterative loop in ini_pressure for ALLOW_AUTODIFF_TAMC |
- avoid iterative loop in ini_pressure for ALLOW_AUTODIFF_TAMC |
7200 |
- merged some sliced AD support routines |
- merged some sliced AD support routines |
7201 |
|
|
7202 |
checkpoint49 |
checkpoint49 (2003/03/06) |
7203 |
merged from ecco-branch: |
merged from ecco-branch: |
7204 |
o exf: |
o exf: |
7205 |
- Enable initialisation of forcing fields to constant |
- Enable initialisation of forcing fields to constant |
7237 |
(see MITgcm manual). |
(see MITgcm manual). |
7238 |
o cal: synchronized between MAIN and ecco-branch |
o cal: synchronized between MAIN and ecco-branch |
7239 |
|
|
7240 |
checkpoint48i_post |
checkpoint48i_post (2003/03/05) |
7241 |
o Changes to restore differentiability of code w.r.t. previous tag |
o Changes to restore differentiability of code w.r.t. previous tag |
7242 |
(mostly adding new routines to make list and replacing |
(mostly adding new routines to make list and replacing |
7243 |
pressure by totPhiHyd). |
pressure by totPhiHyd). |
7255 |
tbar, sbar, psbar, which should not be reinitialised; |
tbar, sbar, psbar, which should not be reinitialised; |
7256 |
only relevant for ecco-branch) |
only relevant for ecco-branch) |
7257 |
|
|
7258 |
checkpoint48h_post |
checkpoint48h_post (2003/02/28) |
7259 |
o improve "ini_p_ground" when using finite difference form for calc_phi_hyd |
o improve "ini_p_ground" when using finite difference form for calc_phi_hyd |
7260 |
o Added net flux to downward flux conversion to pkg/exf/exf_getffields.F |
o Added net flux to downward flux conversion to pkg/exf/exf_getffields.F |
7261 |
o Added SEAICE_initialHEFF to pkg/seaice |
o Added SEAICE_initialHEFF to pkg/seaice |
7262 |
o ecco_the_model_main.F: SEAICE_WRITE_PICKUP must precede WRITE_CHECKPOINT |
o ecco_the_model_main.F: SEAICE_WRITE_PICKUP must precede WRITE_CHECKPOINT |
7263 |
|
|
7264 |
checkpoint48g_post |
checkpoint48g_post (2003/02/18) |
7265 |
--- EOS: |
--- EOS: |
7266 |
o compute locally the pressure for use in EOS: UNESCO, JMD95P, MDJWF |
o compute locally the pressure for use in EOS: UNESCO, JMD95P, MDJWF |
7267 |
store total Potential in totPhyHyd for diagnostics & EOS. |
store total Potential in totPhyHyd for diagnostics & EOS. |
7275 |
( changes results of ideal_2D_oce ) |
( changes results of ideal_2D_oce ) |
7276 |
o includes r* 2nd term in potential gradient. |
o includes r* 2nd term in potential gradient. |
7277 |
|
|
7278 |
checkpoint48f_post |
checkpoint48f_post (2003/02/18) |
7279 |
Merging from release1_p12: |
Merging from release1_p12: |
7280 |
o Modifications for using pkg/exf with pkg/seaice |
o Modifications for using pkg/exf with pkg/seaice |
7281 |
- improved description of the various forcing configurations |
- improved description of the various forcing configurations |
7303 |
- adjoint-friendly modifications |
- adjoint-friendly modifications |
7304 |
- added a SEAICE_WRITE_PICKUP at end of the_model_main.F |
- added a SEAICE_WRITE_PICKUP at end of the_model_main.F |
7305 |
|
|
7306 |
checkpoint48e_post |
checkpoint48e_post (2003/02/12) |
7307 |
o New S/R for diagnostic of bottom pressure (phi0surf was missing in c48d_post) |
o New S/R for diagnostic of bottom pressure (phi0surf was missing in c48d_post) |
7308 |
o dynamics: change definition of computational domain & adapt mom_fluxform |
o dynamics: change definition of computational domain & adapt mom_fluxform |
7309 |
accordingly ; when viscA4=0, allows to run the dynamics with Olx=Oly=2. |
accordingly ; when viscA4=0, allows to run the dynamics with Olx=Oly=2. |
7314 |
inverted_barometer solid-body.cs-32x32x1 |
inverted_barometer solid-body.cs-32x32x1 |
7315 |
(high order AdvScheme and/or multiDimAd works with Olx=Oly=2 ? not sure) |
(high order AdvScheme and/or multiDimAd works with Olx=Oly=2 ? not sure) |
7316 |
|
|
7317 |
checkpoint48d_post |
checkpoint48d_post (2003/02/09) |
7318 |
o in preparation for r*: |
o in preparation for r*: |
7319 |
a) use pre-computed gradient of hydrostatic potential: |
a) use pre-computed gradient of hydrostatic potential: |
7320 |
changes in timestep.F & mom_cdscheme.F affects results of ideal_2D_oce |
changes in timestep.F & mom_cdscheme.F affects results of ideal_2D_oce |
7322 |
=> affects results of glob_oce_pressure (different truncation error) |
=> affects results of glob_oce_pressure (different truncation error) |
7323 |
update output.txt of ideal_2D_oce & global_ocean_pressure |
update output.txt of ideal_2D_oce & global_ocean_pressure |
7324 |
|
|
7325 |
checkpoint48d_pre |
checkpoint48d_pre (2003/02/08) |
7326 |
o in preparation for r*: |
o in preparation for r*: |
7327 |
new S/R (calc_grad_phi_hyd.F) to compute Hydrostatic potential gradient. |
new S/R (calc_grad_phi_hyd.F) to compute Hydrostatic potential gradient. |
7328 |
pass the 2 comp. of the grad. as arguments to momentum S/R. |
pass the 2 comp. of the grad. as arguments to momentum S/R. |
7329 |
but for the moment, only used if it does not change the results. |
but for the moment, only used if it does not change the results. |
7330 |
o add finite volume form of calc_phi_hyd for buoyancyRelation OCEANIC & OCEANICP |
o add finite volume form of calc_phi_hyd for buoyancyRelation OCEANIC & OCEANICP |
7331 |
|
|
7332 |
checkpoint48c_post |
checkpoint48c_post (2003/02/06) |
7333 |
Modifications in treatment of initial flux forcing controls |
Modifications in treatment of initial flux forcing controls |
7334 |
to avoid extra storing of flux fields. |
to avoid extra storing of flux fields. |
7335 |
|
|
7336 |
checkpoint48c_pre |
checkpoint48c_pre (2003/01/21) |
7337 |
o Added tidal_basin_2d experiment (currently 1D!) |
o Added tidal_basin_2d experiment (currently 1D!) |
7338 |
o can use r* Coordinate with OBC (but Orlanski Rad. BC not yet implemented) |
o can use r* Coordinate with OBC (but Orlanski Rad. BC not yet implemented) |
7339 |
|
|
7340 |
checkpoint48b_post |
checkpoint48b_post (2003/01/27) |
7341 |
o r* coordinate added in #ifdef NONLIN_FRSURF block. |
o r* coordinate added in #ifdef NONLIN_FRSURF block. |
7342 |
(modification to pressure gradient not yet implemented) |
(modification to pressure gradient not yet implemented) |
7343 |
o mom_fluxform: new S/R mom_calc_rtrans.F computes vertical transports |
o mom_fluxform: new S/R mom_calc_rtrans.F computes vertical transports |
7344 |
(for U & V) that are used for vertical advection of momentum. |
(for U & V) that are used for vertical advection of momentum. |
7345 |
|
|
7346 |
checkpoint48a_post |
checkpoint48a_post (2003/01/24) |
7347 |
o In preparation for r*, use temp. array to compute vertical transport |
o In preparation for r*, use temp. array to compute vertical transport |
7348 |
in flux-form momentum pkg. => change results of few test-exp. |
in flux-form momentum pkg. => change results of few test-exp. |
7349 |
Update output of: exp4, exp5, front_relax, global_ocean_pressure, |
Update output of: exp4, exp5, front_relax, global_ocean_pressure, |
7350 |
lab_sea, natl_box & plume_on_slope |
lab_sea, natl_box & plume_on_slope |
7351 |
|
|
7352 |
checkpoint48 |
checkpoint48 (2003/01/23) |
7353 |
o fix small bug that was causing lot of warning (TIMER_STOP 'UPDATE_CG2D') |
o fix small bug that was causing lot of warning (TIMER_STOP 'UPDATE_CG2D') |
7354 |
|
|
7355 |
checkpoint47j_post |
checkpoint47j_post (2003/01/21) |
7356 |
o add new exp. (ideal_2D_oce) to test "exotic" parameters and options. |
o add new exp. (ideal_2D_oce) to test "exotic" parameters and options. |
7357 |
o moved adexch from forward_step to addummy_in_stepping |
o moved adexch from forward_step to addummy_in_stepping |
7358 |
o added exch in ctrl_map_... |
o added exch in ctrl_map_... |
7371 |
re-activated full calculation of taperfct for case 'ac02' |
re-activated full calculation of taperfct for case 'ac02' |
7372 |
o updating verification/ adjoints of carbon, global_ocean.90x40x15 |
o updating verification/ adjoints of carbon, global_ocean.90x40x15 |
7373 |
|
|
7374 |
checkpoint47i_post |
checkpoint47i_post (2003/01/13) |
7375 |
o GM_EXCLUDE_() replace GM_TAPER_(): by default, all the code is compiled. |
o GM_EXCLUDE_() replace GM_TAPER_(): by default, all the code is compiled. |
7376 |
o add GM_Small_Number & GM_slopeSqCutoff as run-time parameters (data.gmredi) |
o add GM_Small_Number & GM_slopeSqCutoff as run-time parameters (data.gmredi) |
7377 |
default values = 1.D-12 & 1.D+48 (=> give same results as checkpoint47f_post) |
default values = 1.D-12 & 1.D+48 (=> give same results as checkpoint47f_post) |
7387 |
S/R gmredi_slope_psi should be cleaned |
S/R gmredi_slope_psi should be cleaned |
7388 |
o verification/carbon now has exactConserv=.TRUE. |
o verification/carbon now has exactConserv=.TRUE. |
7389 |
|
|
7390 |
checkpoint47g_post |
checkpoint47g_post (2003/01/10) |
7391 |
o time-average AIM output: becomes independent from statvars time-average |
o time-average AIM output: becomes independent from statvars time-average |
7392 |
(can be used with #undef ALLOW_TIMEAVE) ; add new variables (e.g., RH) |
(can be used with #undef ALLOW_TIMEAVE) ; add new variables (e.g., RH) |
7393 |
o After TAF bug fix: |
o After TAF bug fix: |
7413 |
in conjunction with data.gmredi parameters to be checked in |
in conjunction with data.gmredi parameters to be checked in |
7414 |
in a few minutes under verification/carbon/code/ |
in a few minutes under verification/carbon/code/ |
7415 |
|
|
7416 |
checkpoint47f_post |
checkpoint47f_post (2002/12/28) |
7417 |
Merging from release1_p10: |
Merging from release1_p10: |
7418 |
o modifications for using pkg/exf with pkg/seaice |
o modifications for using pkg/exf with pkg/seaice |
7419 |
- pkg/seaice CPP options SEAICE_EXTERNAL_FORCING |
- pkg/seaice CPP options SEAICE_EXTERNAL_FORCING |
7425 |
- verification/lab_sea default experiment now uses |
- verification/lab_sea default experiment now uses |
7426 |
pkg/gmredi, pkg/kpp, pkg/seaice, and pkg/exf |
pkg/gmredi, pkg/kpp, pkg/seaice, and pkg/exf |
7427 |
|
|
7428 |
checkpoint47e_post |
checkpoint47e_post (2002/12/27) |
7429 |
o created a tag prior to creating a branch |
o created a tag prior to creating a branch |
7430 |
|
|
7431 |
checkpoint47d_post |
checkpoint47d_post (2002/12/16) |
7432 |
o fixed bug in the oceanic pressure coordinates code: vertical viscosity |
o fixed bug in the oceanic pressure coordinates code: vertical viscosity |
7433 |
at the bottom boundary had an erroneous half slip boundary condition |
at the bottom boundary had an erroneous half slip boundary condition |
7434 |
o added bottom drag and no slip boundary condition capabilities to |
o added bottom drag and no slip boundary condition capabilities to |
7435 |
oceanic pressure coordinates code |
oceanic pressure coordinates code |
7436 |
o added new verification experiment global_ocean_pressure, this experiment is |
o added new verification experiment global_ocean_pressure, this experiment is |
7437 |
also described in the tutorial section of the manual |
also described in the tutorial section of the manual |
7438 |
checkpoint47d_pre |
checkpoint47d_pre (2002/12/16) |
7439 |
|
|
7440 |
checkpoint47c_post |
checkpoint47c_post (2002/12/16) |
7441 |
o Added a verification experiment for a global cubed-sphere ocean run |
o Added a verification experiment for a global cubed-sphere ocean run |
7442 |
- verification/global_ocean.cubed32x32x30 |
- verification/global_ocean.cubed32x32x30 |
7443 |
- uses pkg/therm_seaice and pkg/bulk_forcing |
- uses pkg/therm_seaice and pkg/bulk_forcing |
7449 |
NOTES: requires option NONLIN_FRSURF to be "#define". |
NOTES: requires option NONLIN_FRSURF to be "#define". |
7450 |
o update advect_xz/results/output.txt (left from checkpoint44g_post) |
o update advect_xz/results/output.txt (left from checkpoint44g_post) |
7451 |
|
|
7452 |
checkpoint47b_post |
checkpoint47b_post (2002/12/05) |
7453 |
Merging from release1_p9: |
Merging from release1_p9: |
7454 |
o pkg/seaice |
o pkg/seaice |
7455 |
- removed GOTO's and added taf directives |
- removed GOTO's and added taf directives |
7466 |
- added missing matlab routines |
- added missing matlab routines |
7467 |
- added test of thermodynamics parallelization |
- added test of thermodynamics parallelization |
7468 |
|
|
7469 |
checkpoint47a_post |
checkpoint47a_post (2002/11/23) |
7470 |
o new pkg: aim_v23 |
o new pkg: aim_v23 |
7471 |
= F. Molteni atmos.physics (SPEEDY, ver23) adapted to MITgcm. |
= F. Molteni atmos.physics (SPEEDY, ver23) adapted to MITgcm. |
7472 |
for now, keep the same surface forcing as before. |
for now, keep the same surface forcing as before. |
7483 |
- Two ifdef statements for compile time, |
- Two ifdef statements for compile time, |
7484 |
ALLOW_THERM_SEAICE and ALLOW_BULK_FORCE |
ALLOW_THERM_SEAICE and ALLOW_BULK_FORCE |
7485 |
|
|
7486 |
checkpoint47 |
checkpoint47 (2002/11/15) |
7487 |
differentiable version of checkpoint46n_post |
differentiable version of checkpoint46n_post |
7488 |
o bug fix in quasihydrostaticterms |
o bug fix in quasihydrostaticterms |
7489 |
o * "clean" adjoint code (in terms of extensive recomputations) |
o * "clean" adjoint code (in terms of extensive recomputations) |
7512 |
- #define GM_VISBECK_VARIABLE_K |
- #define GM_VISBECK_VARIABLE_K |
7513 |
- GM_taper_scheme = 'ldd97' |
- GM_taper_scheme = 'ldd97' |
7514 |
|
|
7515 |
checkpoint46n_post |
checkpoint46n_post (2002/11/12) |
7516 |
Merging from release1_p8: |
Merging from release1_p8: |
7517 |
o verification/natl_box: |
o verification/natl_box: |
7518 |
updating new external_fields_load routine |
updating new external_fields_load routine |
7566 |
the exf (and cal) package instead of the |
the exf (and cal) package instead of the |
7567 |
external_fields_load routine (cf README file). |
external_fields_load routine (cf README file). |
7568 |
|
|
7569 |
checkpoint46m_post |
checkpoint46m_post (2002/11/07) |
7570 |
o modified testscript to return -- when there are no lines of "%MON" output |
o modified testscript to return -- when there are no lines of "%MON" output |
7571 |
o added new flag "quasiHydrostatic" for QH mode |
o added new flag "quasiHydrostatic" for QH mode |
7572 |
and new routine quasihydrostaticterms() |
and new routine quasihydrostaticterms() |
7579 |
o removed gravitySign from PARM04 |
o removed gravitySign from PARM04 |
7580 |
o switched to g77/ifc from pgf77 in aim experiments |
o switched to g77/ifc from pgf77 in aim experiments |
7581 |
|
|
7582 |
checkpoint46l_post |
checkpoint46l_post (2002/11/01) |
7583 |
o made convective adjustment work with pressure coordinates: |
o made convective adjustment work with pressure coordinates: |
7584 |
- changed the direction of k-loop in convective_adjustment.F for the |
- changed the direction of k-loop in convective_adjustment.F for the |
7585 |
case of pressure coordinates (OCEANICP,ATMOSPHERIC buoyancyRelation) |
case of pressure coordinates (OCEANICP,ATMOSPHERIC buoyancyRelation) |
7592 |
at the beginning of find_rho, find_alpha, and find_beta, does a |
at the beginning of find_rho, find_alpha, and find_beta, does a |
7593 |
check of the entire slice, if CPP-option |
check of the entire slice, if CPP-option |
7594 |
CHECK_SALINITY_FOR_NEGATIVE_VALUES is defined |
CHECK_SALINITY_FOR_NEGATIVE_VALUES is defined |
7595 |
checkpoint46l_pre |
checkpoint46l_pre (2002/10/23) |
7596 |
|
|
7597 |
checkpoint46k_post |
checkpoint46k_post (2002/10/23) |
7598 |
o fixed the verification/global_ocean.90x40x15 experiment: |
o fixed the verification/global_ocean.90x40x15 experiment: |
7599 |
- new bathymetry (the world according to A., JMC, and M.) |
- new bathymetry (the world according to A., JMC, and M.) |
7600 |
- new initial fields and forcing fields (*.bin files) |
- new initial fields and forcing fields (*.bin files) |
7608 |
- read AIM physics parameters from a file (data.aimphys) |
- read AIM physics parameters from a file (data.aimphys) |
7609 |
- set defaults values = F.Molteni paper (Clim.Dyn., 2002) |
- set defaults values = F.Molteni paper (Clim.Dyn., 2002) |
7610 |
|
|
7611 |
checkpoint46j_post |
checkpoint46j_post (2002/10/07) |
7612 |
o split calc_exact_eta in 2 S/R : integr_continuity & update_etaH |
o split calc_exact_eta in 2 S/R : integr_continuity & update_etaH |
7613 |
o move wVel computation at the end of the time step, in S/R integr_continuity |
o move wVel computation at the end of the time step, in S/R integr_continuity |
7614 |
o create specific S/R to exchange T,S before DYNAMICS (for stagger time step) |
o create specific S/R to exchange T,S before DYNAMICS (for stagger time step) |
7615 |
o update timeave pkg for wVel diagnostic. |
o update timeave pkg for wVel diagnostic. |
7616 |
checkpoint46j_pre |
checkpoint46j_pre (2002/09/27) |
7617 |
|
|
7618 |
checkpoint46i_post |
checkpoint46i_post (2002/09/25) |
7619 |
o Clean up AIM package (and keep the results unchanged): |
o Clean up AIM package (and keep the results unchanged): |
7620 |
include CPP_OPTION and use IMPLICT NONE in all routines ; |
include CPP_OPTION and use IMPLICT NONE in all routines ; |
7621 |
declare all the variables _RL ; use _d 0 for all numerical constants. |
declare all the variables _RL ; use _d 0 for all numerical constants. |
7622 |
use ifdef ALLOW_AIM everywhere. And now AIM can be used with g77 ! |
use ifdef ALLOW_AIM everywhere. And now AIM can be used with g77 ! |
7623 |
|
|
7624 |
checkpoint46h_post |
checkpoint46h_post (2002/09/25) |
7625 |
o cleaned up the use of rhoNil and rhoConst. |
o cleaned up the use of rhoNil and rhoConst. |
7626 |
- rhoNil should only appear in the LINEAR equation of state, everywhere |
- rhoNil should only appear in the LINEAR equation of state, everywhere |
7627 |
else rhoNil is replaced by rhoConst, e.g. find_rho computes rho-rhoConst |
else rhoNil is replaced by rhoConst, e.g. find_rho computes rho-rhoConst |
7631 |
value is 999.8 kg/m^3 |
value is 999.8 kg/m^3 |
7632 |
o cleanup up external_forcing.F and external_forcing_surf.F |
o cleanup up external_forcing.F and external_forcing_surf.F |
7633 |
- can now be used by both OCEANIC and OCEANICP |
- can now be used by both OCEANIC and OCEANICP |
7634 |
checkpoint46h_pre |
checkpoint46h_pre (2002/09/18) |
7635 |
|
|
7636 |
Added code to convert surface volume flux (fresh water) into |
Added code to convert surface volume flux (fresh water) into |
7637 |
a mass flux when using P coordinates in the ocean (OCEANICP). |
a mass flux when using P coordinates in the ocean (OCEANICP). |
7638 |
Note: It assumes you have set rho0=rhoConst=density of fresh water. |
Note: It assumes you have set rho0=rhoConst=density of fresh water. |
7639 |
|
|
7640 |
checkpoint46g_post |
checkpoint46g_post (2002/09/18) |
7641 |
o Include a new diagnostic variable phiHydLow for the ocean model |
o Include a new diagnostic variable phiHydLow for the ocean model |
7642 |
- in z-coordinates, it is the bottom pressure anomaly |
- in z-coordinates, it is the bottom pressure anomaly |
7643 |
- in p-coordinates, it is the sea surface elevation |
- in p-coordinates, it is the sea surface elevation |
7655 |
- removed obsolete 'eqn' from the parameter list. |
- removed obsolete 'eqn' from the parameter list. |
7656 |
o added two new verification experiments: gop and goz |
o added two new verification experiments: gop and goz |
7657 |
(4x4 degree global ocean, 15 layers in pressure and height coordinates) |
(4x4 degree global ocean, 15 layers in pressure and height coordinates) |
7658 |
checkpoint46g_pre |
checkpoint46g_pre (2002/09/16) |
7659 |
|
|
7660 |
checkpoint46f_post |
checkpoint46f_post (2002/09/16) |
7661 |
o Enable tangent linear (forward mode) gradient checks: |
o Enable tangent linear (forward mode) gradient checks: |
7662 |
- extended active file handling to g_... files |
- extended active file handling to g_... files |
7663 |
- added TANGENT_SIMULATION to theSimulationMode |
- added TANGENT_SIMULATION to theSimulationMode |
7665 |
o added tangent linear setup in verification/carbon/code_ftl |
o added tangent linear setup in verification/carbon/code_ftl |
7666 |
o added adjoint setup in verification/front_relax/code_ad |
o added adjoint setup in verification/front_relax/code_ad |
7667 |
|
|
7668 |
checkpoint46e_post |
checkpoint46e_post (2002/09/05) |
7669 |
o Added new equation of state -> MDJWF |
o Added new equation of state -> MDJWF |
7670 |
- EOS of McDougall et al., 2002, JAOT, submitted |
- EOS of McDougall et al., 2002, JAOT, submitted |
7671 |
- caveat: the equation of state is only valid for a smaller (more |
- caveat: the equation of state is only valid for a smaller (more |
7674 |
- added more check values for density in check_eos (ini_eos.F), some of |
- added more check values for density in check_eos (ini_eos.F), some of |
7675 |
the old check values are out of the range of the MDJWF-eos, so don't |
the old check values are out of the range of the MDJWF-eos, so don't |
7676 |
expect perfect matches for those |
expect perfect matches for those |
7677 |
checkpoint46e_pre |
checkpoint46e_pre (2002/08/19) |
7678 |
|
|
7679 |
checkpoint46d_post |
checkpoint46d_post (2002/08/19) |
7680 |
o fixed store_pressure to work with both buoyancy relation = 'OCEANIC' and |
o fixed store_pressure to work with both buoyancy relation = 'OCEANIC' and |
7681 |
'OCEANICP', also initialised field pressure correctly in ini_eos in the |
'OCEANICP', also initialised field pressure correctly in ini_eos in the |
7682 |
case of pressure coordinates. eosType='JMD95Z' in |
case of pressure coordinates. eosType='JMD95Z' in |
7683 |
combination with buoyancyRelation='OCEANICP' now causes an error. |
combination with buoyancyRelation='OCEANICP' now causes an error. |
7684 |
o Changed p = pressure(i,j,k,bi,bj) to p = pressure(i,j,kRef,bi,bj) |
o Changed p = pressure(i,j,k,bi,bj) to p = pressure(i,j,kRef,bi,bj) |
7685 |
in find_alpha/beta. |
in find_alpha/beta. |
7686 |
checkpoint46d_pre |
checkpoint46d_pre (2002/08/15) |
7687 |
|
|
7688 |
o Changed p = pressure(i,j,k,bi,bj) to p = pressure(i,j,kRef,bi,bj) |
o Changed p = pressure(i,j,k,bi,bj) to p = pressure(i,j,kRef,bi,bj) |
7689 |
so that JMD95Z and JMD95P give approptiate static stability in find_rho. |
so that JMD95Z and JMD95P give approptiate static stability in find_rho. |
7690 |
|
|
7691 |
checkpoint46c_post |
checkpoint46c_post (2002/08/15) |
7692 |
o Changes necessary for ocean in p-coordinates |
o Changes necessary for ocean in p-coordinates |
7693 |
- Added new buoyancy relation = 'OCEANICP' |
- Added new buoyancy relation = 'OCEANICP' |
7694 |
- Added new parameters = gravitySign (this used to be contained inside |
- Added new parameters = gravitySign (this used to be contained inside |
7695 |
the factor dRdZ which I added when we first switched to R coordinates). |
the factor dRdZ which I added when we first switched to R coordinates). |
7696 |
X GM/Redi is not compatible (yet) |
X GM/Redi is not compatible (yet) |
7697 |
X bottom drag and no-slip need to be debugged. |
X bottom drag and no-slip need to be debugged. |
7698 |
checkpoint46c_pre |
checkpoint46c_pre (2002/08/07) |
7699 |
|
|
7700 |
checkpoint46b_post |
checkpoint46b_post (2002/08/07) |
7701 |
o Added new equation of state -> JMD95Z and JMD95P |
o Added new equation of state -> JMD95Z and JMD95P |
7702 |
- EOS of Jackett and McDougall, 1995, JAOT |
- EOS of Jackett and McDougall, 1995, JAOT |
7703 |
- moved all EOS parameters into EOS.h |
- moved all EOS parameters into EOS.h |
7706 |
in-situ temperature (see JMD95) |
in-situ temperature (see JMD95) |
7707 |
o Modified formatting for knudsen2.f in utils/knudsen2 and added |
o Modified formatting for knudsen2.f in utils/knudsen2 and added |
7708 |
unesco.f to be used with POLY3 |
unesco.f to be used with POLY3 |
7709 |
checkpoint46b_pre |
checkpoint46b_pre (2002/07/31) |
7710 |
|
|
7711 |
checkpoint46a_post |
checkpoint46a_post (2002/07/31) |
7712 |
o Added (atmospheric) pressure loading |
o Added (atmospheric) pressure loading |
7713 |
- new field in FFIELDS.h, etc... |
- new field in FFIELDS.h, etc... |
7714 |
- new cpp flag ATMOSPHERIC_LOADING |
- new cpp flag ATMOSPHERIC_LOADING |
7715 |
o Changed hFacC to _hFacC in calc_phi_hyd.F |
o Changed hFacC to _hFacC in calc_phi_hyd.F |
7716 |
o Added SHORTWAVE_HEATING to some files for consistency |
o Added SHORTWAVE_HEATING to some files for consistency |
7717 |
checkpoint46a_pre |
checkpoint46a_pre (2002/07/13) |
7718 |
|
|
7719 |
checkpoint46 |
checkpoint46 (2002/07/13) |
7720 |
further merges from release1_p5 |
further merges from release1_p5 |
7721 |
o new ctrl package |
o new ctrl package |
7722 |
- adopted from ECCO environment to enable optimization |
- adopted from ECCO environment to enable optimization |
7743 |
o cleaned TAF keys iikey, idkey (dynamics.F, thermodynamics.F) |
o cleaned TAF keys iikey, idkey (dynamics.F, thermodynamics.F) |
7744 |
o incorporated hooks for sponge layer code (external_forcing.F) |
o incorporated hooks for sponge layer code (external_forcing.F) |
7745 |
|
|
7746 |
checkpoint45d_post |
checkpoint45d_post (2002/07/12) |
7747 |
o import 2 fixes from release1_p5 (CG2D.h & packages_readparms.F) |
o import 2 fixes from release1_p5 (CG2D.h & packages_readparms.F) |
7748 |
o use recip_dx*,recip_dy* instead of /dx*,/dy* in orlanski_E,W,N,S |
o use recip_dx*,recip_dy* instead of /dx*,/dy* in orlanski_E,W,N,S |
7749 |
(affects plume_on_slope "cg2d" output) |
(affects plume_on_slope "cg2d" output) |
7757 |
- for each tracer, define internal flag for multiDimAdvection & A-B |
- for each tracer, define internal flag for multiDimAdvection & A-B |
7758 |
o monitor: change definition of KE to check conservation of Energy |
o monitor: change definition of KE to check conservation of Energy |
7759 |
|
|
7760 |
checkpoint45c_post |
checkpoint45c_post (2002/05/30) |
7761 |
o Removed f90 comments ("!") |
o Removed f90 comments ("!") |
7762 |
o Modified initialisations to enable exf package for MITgcm |
o Modified initialisations to enable exf package for MITgcm |
7763 |
(without invoking ECCO_PACKAGE). |
(without invoking ECCO_PACKAGE). |
7765 |
- enable centered differences |
- enable centered differences |
7766 |
- modified format of standard output |
- modified format of standard output |
7767 |
|
|
7768 |
checkpoint45b_post |
checkpoint45b_post (2002/05/30) |
7769 |
o cleaned exchange calls in cg2d |
o cleaned exchange calls in cg2d |
7770 |
o Included CPP option ALLOW_AUTODIFF_MONITOR in forward_step |
o Included CPP option ALLOW_AUTODIFF_MONITOR in forward_step |
7771 |
o included CPP option SINGLE_LAYER_MODE in thermodynamics |
o included CPP option SINGLE_LAYER_MODE in thermodynamics |
7777 |
(corresponding adjustment of TAF tape initialisation). |
(corresponding adjustment of TAF tape initialisation). |
7778 |
o in calc_diffusivity/calc_viscosity extended domain to full overlap. |
o in calc_diffusivity/calc_viscosity extended domain to full overlap. |
7779 |
|
|
7780 |
checkpoint45a_post |
checkpoint45a_post (2002/05/01) |
7781 |
o compute Rho over the whole domain (extend iMin,jMin indices) |
o compute Rho over the whole domain (extend iMin,jMin indices) |
7782 |
o specific exchange for X-slice domain (case Ny=1) |
o specific exchange for X-slice domain (case Ny=1) |
7783 |
o argument futureIter of S/R obcs_calc missing in exp4 & internal_wave /code |
o argument futureIter of S/R obcs_calc missing in exp4 & internal_wave /code |
7797 |
(conflict on some platforms, e.g. IBM SP3) |
(conflict on some platforms, e.g. IBM SP3) |
7798 |
o modified carbon verif. |
o modified carbon verif. |
7799 |
|
|
7800 |
checkpoint44h_pre |
checkpoint44h_pre (2002/03/14) |
7801 |
o vertical grid option: allow to put the Interface at the middle between |
o vertical grid option: allow to put the Interface at the middle between |
7802 |
2 cell-centers ; replace delZ in pkg/kpp by drF. |
2 cell-centers ; replace delZ in pkg/kpp by drF. |
7803 |
o GM Advective form: Tracers are advected using the residual transport (= |
o GM Advective form: Tracers are advected using the residual transport (= |
7804 |
Euler+GM-bolus); set param GM_AdvSeparate=T to return to previous form. |
Euler+GM-bolus); set param GM_AdvSeparate=T to return to previous form. |
7805 |
|
|
7806 |
checkpoint44g_post |
checkpoint44g_post (2002/03/05) |
7807 |
o fix surface correction term in multiDimAdvection (affects plume_on_slope |
o fix surface correction term in multiDimAdvection (affects plume_on_slope |
7808 |
results) ; ifdef missing in thermodynamics.F |
results) ; ifdef missing in thermodynamics.F |
7809 |
|
|
7868 |
o check parameters & config (chkpt44a_pre,post) |
o check parameters & config (chkpt44a_pre,post) |
7869 |
o OBC and NonLin_FrSurf. |
o OBC and NonLin_FrSurf. |
7870 |
|
|
7871 |
checkpoint44 |
checkpoint44 (2002/01/18) |
7872 |
o fix bug in mom_vi_del2uv |
o fix bug in mom_vi_del2uv |
7873 |
o select when filters are applied ; add options to zonal_filter (data.zonfilt) |
o select when filters are applied ; add options to zonal_filter (data.zonfilt) |
7874 |
o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection) |
o gmredi: fix Pb in the adiabatic form ; add options (.e.g. Bolus advection) |
7876 |
o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf) |
o improve and extend diagnostics (Monitor, TimeAve with NonLin-FrSurf) |
7877 |
o added some stuff for AD |
o added some stuff for AD |
7878 |
|
|
7879 |
checkpoint43 |
checkpoint43 (2001/09/28) |
7880 |
o added two new advection tests |
o added two new advection tests |
7881 |
o added global 4x4 degree ocean test |
o added global 4x4 degree ocean test |
7882 |
o added test of H&S94 with free surface on cube |
o added test of H&S94 with free surface on cube |
7883 |
o some final mods for gradient check, adjoint,... |
o some final mods for gradient check, adjoint,... |
7884 |
|
|
7885 |
checkpoint42 |
checkpoint42 (2001/09/27) |
7886 |
Fixed AD-related problems: |
Fixed AD-related problems: |
7887 |
o Store directives up-to-date with re-arranged Adams-Bashforth |
o Store directives up-to-date with re-arranged Adams-Bashforth |
7888 |
(mainly thermodynamics.F) |
(mainly thermodynamics.F) |
7894 |
for the case ALLOW_KPP |
for the case ALLOW_KPP |
7895 |
o Cleaned argument list for timestep_tracer.F |
o Cleaned argument list for timestep_tracer.F |
7896 |
|
|
7897 |
checkpoint41 |
checkpoint41 (2001/09/27) |
7898 |
o re-formatted/added comments in prologues of key subroutines |
o re-formatted/added comments in prologues of key subroutines |
7899 |
to work with protex |
to work with protex |
7900 |
|
|
7901 |
checkpoint40 |
checkpoint40 (2001/09/27) |
7902 |
o moved calc_gs, calc_gt and calc_tr1 back to model/src |
o moved calc_gs, calc_gt and calc_tr1 back to model/src |
7903 |
o added FLT (floats) package from Arne along with demo. experiment |
o added FLT (floats) package from Arne along with demo. experiment |
7904 |
o re-arranged Adams-Bashforth scheme for tracers to allow easier |
o re-arranged Adams-Bashforth scheme for tracers to allow easier |
7907 |
o modified multi-dim method to work on cube |
o modified multi-dim method to work on cube |
7908 |
o bug fix in KPP (from DM) |
o bug fix in KPP (from DM) |
7909 |
|
|
7910 |
checkpoint40pre9 |
checkpoint40pre9 (2001/09/27) |
7911 |
o added DST advection schemes |
o added DST advection schemes |
7912 |
o fix MPI bug on SGI's |
o fix MPI bug on SGI's |
7913 |
o modifications for non-linear free-surface |
o modifications for non-linear free-surface |
7917 |
o added/updated many matlab scripts |
o added/updated many matlab scripts |
7918 |
o added multi-dimensional advection method for tracers |
o added multi-dimensional advection method for tracers |
7919 |
|
|
7920 |
checkpoint40pre8 |
checkpoint40pre8 (2001/09/05) |
7921 |
o new package rw/ |
o new package rw/ |
7922 |
Added method for dumping intermediate local arrays: |
Added method for dumping intermediate local arrays: |
7923 |
mdsio_writetile - same as mdsio_writefield except works from inside |
mdsio_writetile - same as mdsio_writefield except works from inside |
7936 |
currently nothing implemented to switch this storing off |
currently nothing implemented to switch this storing off |
7937 |
in case fluxform is used since no CPP flag available). |
in case fluxform is used since no CPP flag available). |
7938 |
|
|
7939 |
checkpoint40pre7 |
checkpoint40pre7 (2001/08/14) |
7940 |
o bug fix in dynamics.F |
o bug fix in dynamics.F |
7941 |
calc_viscosity called before k=1,Nr loop. |
calc_viscosity called before k=1,Nr loop. |
7942 |
o added some #ifdef's ALLOW_PASSIVE_TRACER |
o added some #ifdef's ALLOW_PASSIVE_TRACER |
7943 |
o cleaned initialisations in ctrl_map_ini |
o cleaned initialisations in ctrl_map_ini |
7944 |
related to TAF |
related to TAF |
7945 |
|
|
7946 |
checkpoint40pre6 |
checkpoint40pre6 (2001/08/13) |
7947 |
o split dynamics into thermodynamics & dynamics |
o split dynamics into thermodynamics & dynamics |
7948 |
o corresponding split of calc_diffusivity into |
o corresponding split of calc_diffusivity into |
7949 |
calc_diffusivity, calc_viscosity |
calc_diffusivity, calc_viscosity |
7951 |
o Added diffkr, kapgm to control variables |
o Added diffkr, kapgm to control variables |
7952 |
o bug fix in gmredi_slope_limit for ldd97 |
o bug fix in gmredi_slope_limit for ldd97 |
7953 |
|
|
7954 |
checkpoint40pre5 |
checkpoint40pre5 (2001/07/31) |
7955 |
o proper initialization of Adams-Bashforth time stepping |
o proper initialization of Adams-Bashforth time stepping |
7956 |
+ uses forward step for very first step of model (iter=0) |
+ uses forward step for very first step of model (iter=0) |
7957 |
o re-generated *all* output since almost all output is modified by this |
o re-generated *all* output since almost all output is modified by this |
7965 |
+ this uses an alternative form of ini_curvilinear_grid.F which |
+ this uses an alternative form of ini_curvilinear_grid.F which |
7966 |
is not necessarily any better than the current one... |
is not necessarily any better than the current one... |
7967 |
|
|
7968 |
checkpoint40pre4 |
checkpoint40pre4 (2001/07/30) |
7969 |
o added re-initialisations of utrans,vtrans,rtrans in |
o added re-initialisations of utrans,vtrans,rtrans in |
7970 |
calc_common_factors which are crucial for TAF. |
calc_common_factors which are crucial for TAF. |
7971 |
o extended iMin,jMin range for calc_common_factors, |
o extended iMin,jMin range for calc_common_factors, |
7973 |
o added option ALLOW_PASSIVE_TRACER |
o added option ALLOW_PASSIVE_TRACER |
7974 |
o a few minor updates and fixes |
o a few minor updates and fixes |
7975 |
|
|
7976 |
checkpoint40pre3 |
checkpoint40pre3 (2001/07/13) |
7977 |
o created calc_gtr1.F for gad package |
o created calc_gtr1.F for gad package |
7978 |
o split the_main_loop and re-introduced forward_step |
o split the_main_loop and re-introduced forward_step |
7979 |
o some recomputations of nIter0 for TAMC |
o some recomputations of nIter0 for TAMC |
7980 |
|
|
7981 |
checkpoint40pre2 |
checkpoint40pre2 (2001/07/13) |
7982 |
o Updated to latest branch of AJA, JMC |
o Updated to latest branch of AJA, JMC |
7983 |
o Added gradient check package |
o Added gradient check package |
7984 |
o Added routines for passive tracer handling |
o Added routines for passive tracer handling |
7985 |
o Added carbon sequestration sensitivity experiment |
o Added carbon sequestration sensitivity experiment |
7986 |
|
|
7987 |
checkpoint39 |
checkpoint39 (2001/05/14) |
7988 |
o Modifications and fixes to support TAMC |
o Modifications and fixes to support TAMC |
7989 |
(mainly missing or wrong directives) |
(mainly missing or wrong directives) |
7990 |
o Corrected common blocks when fooling TAMC to produce adjoint I/O |
o Corrected common blocks when fooling TAMC to produce adjoint I/O |
7998 |
(NB: this is not the full ECCO environment) |
(NB: this is not the full ECCO environment) |
7999 |
o disabled some packages by default in genmake |
o disabled some packages by default in genmake |
8000 |
|
|
8001 |
checkpoint38 |
checkpoint38 (2001/04/10) |
8002 |
o see notes_c37_adj.txt |
o see notes_c37_adj.txt |
8003 |
o corrected wrong layer index in external_forcing_t |
o corrected wrong layer index in external_forcing_t |
8004 |
o replaced the_main_loop/forward_step by the_main_loop |
o replaced the_main_loop/forward_step by the_main_loop |
8006 |
(replaced criteria for initial/final state) |
(replaced criteria for initial/final state) |
8007 |
o added runtime flag for pre-C35 pickups: usePickupBeforeC35 |
o added runtime flag for pre-C35 pickups: usePickupBeforeC35 |
8008 |
|
|
8009 |
checkpoint37 |
checkpoint37 (2001/03/13) |
8010 |
o mdsio.F routine split and packaged in pkg/mdsio |
o mdsio.F routine split and packaged in pkg/mdsio |
8011 |
(mdsio.F and mdsio_gl.F still exist in eesupp/src but are not |
(mdsio.F and mdsio_gl.F still exist in eesupp/src but are not |
8012 |
used unless genmake -disable=mdsio) |
used unless genmake -disable=mdsio) |
8023 |
o Non-Hydrostatic pickup file Pb fixed. |
o Non-Hydrostatic pickup file Pb fixed. |
8024 |
o bug with Rigid-lid version (since c35) fixed. |
o bug with Rigid-lid version (since c35) fixed. |
8025 |
|
|
8026 |
checkpoint36 |
checkpoint36 (2001/02/20) |
8027 |
o implement Crank-Nickelson barotropic time-stepping |
o implement Crank-Nickelson barotropic time-stepping |
8028 |
o recover Time-Average diagnostics |
o recover Time-Average diagnostics |
8029 |
o fix Pb in checkpoint (PR#19) |
o fix Pb in checkpoint (PR#19) |
8030 |
o AIM become a standard package ; clean unused CPP_kees |
o AIM become a standard package ; clean unused CPP_kees |
8031 |
|
|
8032 |
checkpoint35 |
checkpoint35 (2001/02/08) |
8033 |
o subtantial rewrite of dynamics.f |
o subtantial rewrite of dynamics.f |
8034 |
o allows staggered time-stepping |
o allows staggered time-stepping |
8035 |
o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt |
o packaged obcs, aim (Atmospheric Physics), zonal_filt, shap_filt |
8036 |
o added bottom drag (linear + quadratic) |
o added bottom drag (linear + quadratic) |
8037 |
|
|
8038 |
checkpoint34 |
checkpoint34 (2001/01/30) |
8039 |
o Modified exchange routines for correct reverse simulation. |
o Modified exchange routines for correct reverse simulation. |
8040 |
o Added verification output to comply with bug fix in impldiff.F |
o Added verification output to comply with bug fix in impldiff.F |
8041 |
as of c33 (exp2, natl_box). |
as of c33 (exp2, natl_box). |
8046 |
o Added routine GLOBAL_SUM_INT to global_sum.F |
o Added routine GLOBAL_SUM_INT to global_sum.F |
8047 |
o Added mdsio_gl.F for ECCO purposes. |
o Added mdsio_gl.F for ECCO purposes. |
8048 |
|
|
8049 |
checkpoint33 |
checkpoint33 (2000/11/30) |
8050 |
o Fixed bug in lower BC in impldiff.F |
o Fixed bug in lower BC in impldiff.F |
8051 |
o Fixed confusion about units of forcing arrays in FFIELDS.h |
o Fixed confusion about units of forcing arrays in FFIELDS.h |
8052 |
namely Fu,Fv,Qnet,Qsw,EmPmR: |
namely Fu,Fv,Qnet,Qsw,EmPmR: |
8064 |
possibly use them. |
possibly use them. |
8065 |
o Corrected genmake to delete a temporary file during configuration |
o Corrected genmake to delete a temporary file during configuration |
8066 |
|
|
8067 |
checkpoint32 |
checkpoint32 (2000/11/13) |
8068 |
o Scaling of forcing fields moved from external_forcing.F to |
o Scaling of forcing fields moved from external_forcing.F to |
8069 |
external_fields_scale.F, called directly after loading fields. |
external_fields_scale.F, called directly after loading fields. |
8070 |
o Surface relaxation terms added to surface tendency fields in |
o Surface relaxation terms added to surface tendency fields in |
8075 |
o Modifications and bug fixes in KPP package. |
o Modifications and bug fixes in KPP package. |
8076 |
o Verification experiment for KPP added (verification/nat_box/) |
o Verification experiment for KPP added (verification/nat_box/) |
8077 |
|
|
8078 |
checkpoint31 |
checkpoint31 (2000/09/11) |
8079 |
o Packages interface brought in line with defined standard |
o Packages interface brought in line with defined standard |
8080 |
-> new routines packages_...F |
-> new routines packages_...F |
8081 |
-> changes in initialise_fixed.F, initialise_varia.F |
-> changes in initialise_fixed.F, initialise_varia.F |
8092 |
- not yet tested for GMRedi. |
- not yet tested for GMRedi. |
8093 |
- not yet tested for KPP. |
- not yet tested for KPP. |
8094 |
|
|
8095 |
checkpoint30 |
checkpoint30 (2000/07/13) |
8096 |
o Updates for OBCs |
o Updates for OBCs |
8097 |
o New experiment for test OBCs (internal_wave) |
o New experiment for test OBCs (internal_wave) |
8098 |
o New output.txt in verification/exp4/results/ |
o New output.txt in verification/exp4/results/ |
8101 |
o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.) |
o CPP'd calls to system routines for TARGET_CRAY_VECTOR (P.H.) |
8102 |
and entry for T90 in genmake |
and entry for T90 in genmake |
8103 |
|
|
8104 |
checkpoint29 |
checkpoint29 (2000/06/21) |
8105 |
o packaged KPP and GM/Redi |
o packaged KPP and GM/Redi |
8106 |
|
|
8107 |
checkpoint28 |
checkpoint28 (2000/06/09) |
8108 |
o Corrected initialization of hFacMin for difference vertical coordinates |
o Corrected initialization of hFacMin for difference vertical coordinates |
8109 |
o Modified calculation of partial cell thickness to more robust algorithm |
o Modified calculation of partial cell thickness to more robust algorithm |
8110 |
o config_summary.F: replaced write_1D_... by write_0D_... |
o config_summary.F: replaced write_1D_... by write_0D_... |
8117 |
included store directives and tape key computations required for TAMC. |
included store directives and tape key computations required for TAMC. |
8118 |
o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC |
o ALL TAMC related changes are between ifdef ALLOW_AUTODIFF_TAMC |
8119 |
|
|
8120 |
checkpoint27 |
checkpoint27 (2000/04/10) |
8121 |
o fixed calc_isoslopes() to so that cancellation of terms in tensor |
o fixed calc_isoslopes() to so that cancellation of terms in tensor |
8122 |
formulation works properly with variable resolution. |
formulation works properly with variable resolution. |
8123 |
o restructured the calling tree between the_model_main() and dynamics() |
o restructured the calling tree between the_model_main() and dynamics() |
8125 |
o introduced initialization file pSurfInitFile for free surface (cg2d_x) |
o introduced initialization file pSurfInitFile for free surface (cg2d_x) |
8126 |
in new routine ini_psurf() |
in new routine ini_psurf() |
8127 |
|
|
8128 |
checkpoint26 |
checkpoint26 (2000/04/05) |
8129 |
o moved some #ifdef in optional routines to encompass everything |
o moved some #ifdef in optional routines to encompass everything |
8130 |
except the argument declarations. This was using up some memory. |
except the argument declarations. This was using up some memory. |
8131 |
o fixed macros like _ADT to work with both versions of Linux cpp |
o fixed macros like _ADT to work with both versions of Linux cpp |
8135 |
(macros are now in eesupp/inc/CPP_EEMACROS.h) |
(macros are now in eesupp/inc/CPP_EEMACROS.h) |
8136 |
o patch for 2 processor JAM mode |
o patch for 2 processor JAM mode |
8137 |
|
|
8138 |
checkpoint25 |
checkpoint25 (2000/03/15) |
8139 |
o updates for OBCs and NH |
o updates for OBCs and NH |
8140 |
o dramatically reduced memory usage |
o dramatically reduced memory usage |
8141 |
o added "JAM" routines for use on Artic network |
o added "JAM" routines for use on Artic network |
8146 |
an explicit free-surface option) |
an explicit free-surface option) |
8147 |
o initial state input files for U and V |
o initial state input files for U and V |
8148 |
|
|
8149 |
checkpoint24 |
checkpoint24 (1999/08/02) |
8150 |
o Removed some spurious "REAL"s |
o Removed some spurious "REAL"s |
8151 |
o Updated KPP to latest version from JPL |
o Updated KPP to latest version from JPL |
8152 |
o Added a COS(latitude) in horizontal viscosity |
o Added a COS(latitude) in horizontal viscosity |
8153 |
|
|
8154 |
checkpoint23 |
checkpoint23 (1999/05/26) |
8155 |
o Added del^4 diffusion for salt and temperature |
o Added del^4 diffusion for salt and temperature |
8156 |
o Multiple minor fixes (implicit none's, arguments to global_sum, etc.) |
o Multiple minor fixes (implicit none's, arguments to global_sum, etc.) |
8157 |
|
|
8158 |
checkpoint22 |
checkpoint22 (1999/05/18) |
8159 |
o Made many small changes: implicit none, format(i5), etc... |
o Made many small changes: implicit none, format(i5), etc... |
8160 |
o Introduced KPP mixing scheme (compiles and runs but *not* tested) |
o Introduced KPP mixing scheme (compiles and runs but *not* tested) |
8161 |
|
|
8162 |
checkpoint21 |
checkpoint21 (1999/05/18) |
8163 |
o Introduced new I/O package that supports direct-access records (mdsio.F) |
o Introduced new I/O package that supports direct-access records (mdsio.F) |
8164 |
o Split-up mid-level I/O routines |
o Split-up mid-level I/O routines |
8165 |
o Updated input data for experiments 0,1,2,4 and 5 |
o Updated input data for experiments 0,1,2,4 and 5 |
8166 |
o Finally removed the genmake.* scripts (everyone seems happy with genmake) |
o Finally removed the genmake.* scripts (everyone seems happy with genmake) |
8167 |
|
|
8168 |
checkpoint20 |
checkpoint20 (1999/03/22) |
8169 |
o Tidied up open-boundaries some more |
o Tidied up open-boundaries some more |
8170 |
o Added non-hydrostatic code |
o Added non-hydrostatic code |
8171 |
o Fixed some input data |
o Fixed some input data |
8172 |
o Modified MPI start-up to work in "coupled" context. |
o Modified MPI start-up to work in "coupled" context. |
8173 |
|
|
8174 |
checkpoint19 |
checkpoint19 (1998/12/15) |
8175 |
o Tidied up directory structure for verification experiments. |
o Tidied up directory structure for verification experiments. |
8176 |
o Added new code for open boundaries. |
o Added new code for open boundaries. |
8177 |
o Corrected advective terms near boundaries. |
o Corrected advective terms near boundaries. |
8179 |
o Implemented free-slip/no-slip BCs and del^4 dissipation. |
o Implemented free-slip/no-slip BCs and del^4 dissipation. |
8180 |
o Split default parameters out of ini_parms.F into set_defaults.F. |
o Split default parameters out of ini_parms.F into set_defaults.F. |
8181 |
|
|
8182 |
checkpoint18 |
checkpoint18 (1998/11/30) |
8183 |
o Further changes for optional code generation with |
o Further changes for optional code generation with |
8184 |
CPP - ugh! |
CPP - ugh! |
8185 |
|
|
8186 |
checkpoint17 |
checkpoint17 (1998/11/03) |
8187 |
o Beginning to incorporating modularity |
o Beginning to incorporating modularity |
8188 |
for supporting atmos. and ocean configs. |
for supporting atmos. and ocean configs. |
8189 |
o Small changes for TAMC complinace |
o Small changes for TAMC complinace |
8190 |
o New ultra simple test case. Barotropic box |
o New ultra simple test case. Barotropic box |
8191 |
configuration "exp0". |
configuration "exp0". |
8192 |
|
|
8193 |
checkpoint16 |
checkpoint16 (1998/10/28) |
8194 |
o Minor changes to exchange routines to support |
o Minor changes to exchange routines to support |
8195 |
accumulation in reverse mode. Adjoint of an |
accumulation in reverse mode. Adjoint of an |
8196 |
assignment is an addition. |
assignment is an addition. |
8198 |
syntax) and by g77 under Linux ( 72 character |
syntax) and by g77 under Linux ( 72 character |
8199 |
limit ). |
limit ). |
8200 |
|
|
8201 |
checkpoint15 |
checkpoint15 (1998/09/29) |
8202 |
Rewrote exchange routines to allow |
Rewrote exchange routines to allow |
8203 |
o General tile <-> tile connectivity. |
o General tile <-> tile connectivity. |
8204 |
o TAMC reverse mode flag ( is this really needed? ) |
o TAMC reverse mode flag ( is this really needed? ) |
8207 |
shmput/shmget, VIA, SYSV shmem and every other cool |
shmput/shmget, VIA, SYSV shmem and every other cool |
8208 |
communication method. |
communication method. |
8209 |
|
|
8210 |
checkpoint14 |
checkpoint14 (1998/09/09) |
8211 |
Consistent isomorphism chages made. These allow dynamical core |
Consistent isomorphism chages made. These allow dynamical core |
8212 |
to support both pressure and meters as a vertical coordinate. |
to support both pressure and meters as a vertical coordinate. |
8213 |
|
|
8214 |
checkpoint13 |
checkpoint13 (1998/07/17) |
8215 |
Release which corrects global_max problem and a couple |
Release which corrects global_max problem and a couple |
8216 |
of KGM time-averaging diagnostic errors. Also contains |
of KGM time-averaging diagnostic errors. Also contains |
8217 |
a double-gyre experiment setup as well as the baseline |
a double-gyre experiment setup as well as the baseline |
8226 |
I don't want to commit the rDot to the main-trunk until |
I don't want to commit the rDot to the main-trunk until |
8227 |
we've actually tested it... |
we've actually tested it... |
8228 |
|
|
8229 |
checkpoint12 |
checkpoint12 (1998/07/08) |
8230 |
Tidy up and added generic genmake script (formerly |
Tidy up and added generic genmake script (formerly |
8231 |
configure script). |
configure script). |
8232 |
Released to testers. |
Released to testers. |
8233 |
|
|
8234 |
checkpoint11 |
checkpoint11 (1998/07/02) |
8235 |
Re-arranged initialise() and introduced ini_vertical_grid() |
Re-arranged initialise() and introduced ini_vertical_grid() |
8236 |
and ini_masks_etc(). |
and ini_masks_etc(). |
8237 |
|
|
8238 |
checkpoint10 |
checkpoint10 (1998/07/01) |
8239 |
Introduced the configure script. |
Introduced the configure script. |
8240 |
Separated out the diags package. |
Separated out the diags package. |
8241 |
Added template for writing time-averages of tile/intermediate quantities. |
Added template for writing time-averages of tile/intermediate quantities. |
8242 |
Updated SIZE.h in exp2 and made the data big-endian. |
Updated SIZE.h in exp2 and made the data big-endian. |
8243 |
|
|
8244 |
checkpoint9 |
checkpoint9 (1998/06/22) |
8245 |
MPI fix. Filename changes (meta/data). salbin*y stuff. |
MPI fix. Filename changes (meta/data). salbin*y stuff. |
8246 |
General tidy-up. |
General tidy-up. |
8247 |
SST.bin SSS.bin added to verification/exp2 |
SST.bin SSS.bin added to verification/exp2 |
8248 |
|
|
8249 |
checkpoint8 |
checkpoint8 (1998/06/22) |
8250 |
Inludes time-dependant forcing and time-averaging. |
Inludes time-dependant forcing and time-averaging. |
8251 |
Works at 4x4 and 2.8125x2.8125 global |
Works at 4x4 and 2.8125x2.8125 global |
8252 |
|
|
8256 |
model etc.. |
model etc.. |
8257 |
Configured for verification/exp2 - 4 degree global, two process. |
Configured for verification/exp2 - 4 degree global, two process. |
8258 |
|
|
8259 |
checkpoint7 |
checkpoint7 (1998/06/15) |
8260 |
Created by cnh |
Created by cnh |
8261 |
Simple 4 degree global simulation |
Simple 4 degree global simulation |
8262 |
configuration. |
configuration. |
8264 |
hydrography, bathymetry etc |
hydrography, bathymetry etc |
8265 |
Does not include Heat Flux and E-P |
Does not include Heat Flux and E-P |
8266 |
|
|
8267 |
checkpoint6 |
checkpoint6 (1998/06/08) |
8268 |
Created by cnh |
Created by cnh |
8269 |
merged checkpoint5 with CD and |
merged checkpoint5 with CD and |
8270 |
spherical polar code. |
spherical polar code. |
8271 |
Still some problems with GM Redi |
Still some problems with GM Redi |
8272 |
abd full topography. |
abd full topography. |
8273 |
|
|
8274 |
checkpoint5 |
checkpoint5 (1998/06/08) |
8275 |
Created by AJA |
Created by AJA |
8276 |
contains updates to GM Redi |
contains updates to GM Redi |
8277 |
and reordered timestepping loop |
and reordered timestepping loop |
8278 |
for Implicit Diffusion. |
for Implicit Diffusion. |
8279 |
|
|
8280 |
checkpoint4 |
checkpoint4 (1998/05/30) |
8281 |
Created by cnh |
Created by cnh |
8282 |
Contains memory saving macros ( _rdxc etc..) for when |
Contains memory saving macros ( _rdxc etc..) for when |
8283 |
grid variations are limited. |
grid variations are limited. |
8284 |
Contains polynomial coeffs for EOS and knudsen program |
Contains polynomial coeffs for EOS and knudsen program |
8285 |
for generation. |
for generation. |
8286 |
|
|
8287 |
checkpoint3 |
checkpoint3 (1998/05/26) |
8288 |
Created by cnh |
Created by cnh |
8289 |
Added extra flags for runtime options |
Added extra flags for runtime options |
8290 |
Added this file |
Added this file |