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- move call to CTRL_INIT & CTRL_ADMTLM from the middle to the bottom of packages_init_fixed.F to allow other pkgs to set mask and weight fields.
- add missing useAUTODIFF and useSMOOTH switches.
modify call to streamice_init_fixed if ALLOW_OPENAD is defined
- packages_boot.F :
- add useCTRL, useECCO to run time parameters list.
- default is true if ALLOW_AUTODIFF, false otherwise.
- IF (useECCO) useCAL = .TRUE.
- IF (useGrdchk) useCTRL = .TRUE.
- do_oceanic_phys.F, packages_check.F, packages_init_fixed.F,
packages_init_variables.F, the_main_loop.F : add useECCO switch
- forward_step.F, load_fields_driver.F, packages_check.F, packages_init_fixed.F,
packages_init_variables.F, the_model_main.F : add useCTRL switch
- initialise_varia.F : add ALLOW_CTRL bracket
- add new pkg "kl10" for mixing due to internal wave breaking ( http://www.sciencedirect.com/science/article/pii/S1463500310000144 )
more standard LAND pkg interface: - call LAND_READPARMS from packages_readparms.F - add a call to LAND_CHECK in packages_check.F - rename LAND_INITIALISE to LAND_INIT_FIXED
- add entry point for new pkg "atm_phys" (atmospheric physics pkg from P. O'Gorman and T. Schneider, JCl, 2008). - re-order sequence of calls within packages_readparms.F, packages_init_fixed.F and packages_write_pickup.F (but skip packages_init_variables.F because of TAF issues).
- add CPP brackets around pkg/cost and pkg/ctrl includes of "CTRL_SIZE.h" "ctrl.h" "ctrl_dummy.h" "optim.h" / "cost.h"
- add run-time switch usePROFILES.
add a call to new S/R CAL_INIT_FIXED (calendar pkg settings)
adding pkg/frazil - see frazil_description.tex for details
Breaking three rules (at least): 1. No check-ins Friday after 5:30pm 2. No check-ins after two beers 3. Forgot the third one
add hook for new subroutine pp81_init_fixed
add many debug-print (to trace down where pkg/cal error msg comes from)
o adding package bbl (Bottom Boundary Layer) description in MITgcm/pkg/bbl/bbl_description.tex example/test experiment in MITgcm_contrib/bbl
changes related to pkg/cheapaml
add hooks for new packages OASIS, the package will follow (hooks exclude the seaice pkg for now)
Adding the shell of, and the hooks to, a new package that will be used to model melting and freezing of vertical glacier ice fronts: Modified Files: doc/tag-index model/inc/PARAMS.h model/src/do_oceanic_phys.F model/src/external_forcing.F model/src/packages_boot.F model/src/packages_check.F model/src/packages_init_fixed.F model/src/packages_init_variables.F model/src/packages_readparms.F Added Files: pkg/icefront/ICEFRONT.h pkg/icefront/ICEFRONT_OPTIONS.h pkg/icefront/icefront_check.F pkg/icefront/icefront_description.tex pkg/icefront/icefront_diagnostics_init.F pkg/icefront/icefront_init_fixed.F pkg/icefront/icefront_init_varia.F pkg/icefront/icefront_readparms.F pkg/icefront/icefront_tendency_apply.F pkg/icefront/icefront_thermodynamics.F
in relation to pkg/smooth
Added calls to layers package
add package longstep
replace FLT_INIT by 3-steps standard initialization S/R: readparms, init_fixed & ini_varia
- clean-up flt package interface
Add call to ggl90_init_fixed.F ggl90_init_varia.F
new pkg "down_slope".
merge netcdf-support and diagnostics from Patrick Rosendahl into code
call DIC S/R through GCHEM interface S/R
added check, readparms, and more diagnostice to pkg/salt_plume also changed package flag from useSaltPlume to useSALT_PLUME
added pkg/salt_plume by gathering code, which were previously spread around various files in model/inc and model/src results remain numerically identical to before, as a first step towards adding more options, etc., to this package
Add init to ADMTLM.
Make useEXF a runtime flag.
rename gad_init.F to gad_init_fixed.F (before adding a gad_init_varia S/R)
add useSEAICE for seaice cost.
Split seaice_init into _fixed, _varia
add hooks for atm2d package
let "CALL DIAGNOSTICS_INIT_FIXED" be the last pkg_init call.
add the regrid package hooks
move call to MYPACKAGE_INIT_FIXED at the right place.
Adding template package MYPACKAGE to serve as reference. Does nothing.
use standard names for PTRACERS initialization S/R
Make pkg/profile fully independent of ecco,cost, etc. stuff to be able to use it in pure forward.
o add hooks for new package shelfice, painless
make embed_files act more like a normal package per JMC's suggestions
o add hooks for new package rbcs
add diagnostics for momentum eq.
Moving seaice-related cost to pkg/seaice/
o MNC-ify the seven variables output by dic_biotic_diags.F as requested by Steph
Remove call to atm common diagnostics init
Flag useECCO causes more harm than good so we effectively disable it.
New package for controlling termination of the model based on the wall clock:
This is handy for those of us who keep losing 5000 cpuhours because the model
took 5 minutes longer than it did the day before.
To use:
In package.conf, add runclock
In data.pkg, add useRunClock=.TRUE.
Add data.runclock to read
&RUNCLOCK
RC_maxtime_hr=2,
RC_maxtime_mi=30,
RC_maxtime_sc=0,
&
The package also write the delta Wall Clock between each model step.
Who can explain a 30% slow down after 60 iterations? Who even knew about it?
Now you can find out lots of dark secrets about the EM EYE TEE GEE SEE EM...
added pkg/exf, SALTanom, and SALTSQan diagnostics
o added diagnostics to pkg/kpp, including computation of mixed layer depth based on a temperature/density criterion o updated verification/natl_box to test the new pkg/kpp diagnostics
add call to shap_filt_init_fixed ;
add call to thsice_init_fixed & gmredi_init_fixed
call ATM_DIAGNOSTICS_INIT for shared (AIM+FIZHI) diagnostics
re-arrange diagnostics pkg initialization: allow each package to extend the available diagnostics list
allow to compile without generic_advdiff pkg.
GCHEM: introduced a useGCHEM runtime flag
o cpl_aim+ocn with mnc output from the ocn_compon_interf package
- works on itrda w/g77 (see: verification/cpl_aim+ocn/itrda_notes.txt)
- needs testing on cg01 (must remove the mpirun "-wd" option from
the run_cpl_test script)
o change the name to reflect that its fixed
Initialisation of MNC within cd_code must not occur in cd_code_ini_vars. While it is benign for the forward, it causes recomputation issues and attempt to re-initialise MNC stuff (and crash), despite flow directives.
o prepare addition of new packages GGL90 and OPPS - new parameters useGGL90 and useOPPS - include call to the new routines at the (hopefully) right places
o overhaul of IO so that we now have flags for MDSIO and/or MNC
- all verification tests compile and run with linux_ia32_g77
- defaults are compatible with current input files--nothing
should change if you were not previously using MNC
- MNC output has been added in numerous places (eg. timeave)
but there are still a few writes not yet do-able with MNC
(this is in progress)
- flags now allow for either/or/both use of MDSIO and MNC and
documentation will soon follow
- numerous small formatting cleanups for ProTeX
needs valid U,V in halo region for multi-Dim-Advec; do Exch(U,V) if staggerTimeStep
Add some timings around fizhi and gridalt calls
o move MNC init routines to initialise_fixed.F o flags in data.mnc for output of the pre-defined "grid types"
o add "useMNC" flag for run-time selection of MNC
o edit all MNC subroutines so that myThid is the _last_ argument
o fix the calling sequence for MNC o add coordinates to the variables within the "state" file o reads still unfinished
Sequence to call diagnostics_initialise
Model infrastructure changes for diagnostics package
Fizhi changes in forward step and diagnostics package_init
Initial check in of gridalt and fizhi (fake!) package routines
o added some infrastructure to call fizhi and gridalt routines o added package dependencies for fizhi
o merging from ecco-branch o minor CPP options update
o cleaning ALLOW_GRADIENT_CHECK -> ALLOW_GRDCHK
o cleaning some ALLOW_TANGENTLINEAR_RUN -> ALLOW_AUTODIFF
o bug fix in find_alpha.F for MDJWF:
- modif. to alpha = 1/D*( dN/dT - rho*dD/Dt) to account for
change rho -> rho-rhoConst
- replace call find_rho to find_rhonum
o added the [#include "AD_CONFIG.h"] statement to all files that need it for adjoint/tl #defines o re-worked the build logic in genmake2 to support AD_CONFIG.h o removed tools/genmake since it no longer works
o first check-in for the "branch-genmake2" merge
o verification suite as run on shelley (gcc 3.2.2):
Wed Oct 8 23:42:29 EDT 2003
T S U V
G D M c m s m s m s m s
E p a R g m m e . m m e . m m e . m m e .
N n k u 2 i a a d i a a d i a a d i a a d
2 d e n d n x n . n x n . n x n . n x n .
OPTFILE=NONE
Y Y Y Y 13 16 16 16 0 16 16 16 16 16 16 16 16 13 12 0 0 pass adjustment.128x64x1
Y Y Y Y 16 16 16 16 0 16 16 16 16 16 16 0 0 16 16 0 0 pass adjustment.cs-32x32x1
Y Y Y Y 16 16 16 16 0 16 16 16 16 16 16 22 0 16 16 22 0 pass adjust_nlfs.cs-32x32x1
Y Y Y Y -- 13 13 16 16 13 13 13 13 16 16 16 16 16 16 16 16 N/O advect_cs
Y Y Y Y -- 22 16 16 16 16 16 16 13 16 16 16 16 16 16 16 16 N/O advect_xy
Y Y Y Y -- 13 16 13 16 16 16 16 16 16 16 22 16 16 16 16 16 N/O advect_xz
Y Y Y Y 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 pass aim.5l_cs
Y Y Y Y 14 16 16 16 16 16 16 16 16 13 16 16 16 16 16 13 16 pass aim.5l_Equatorial_Channel
Y Y Y Y 16 16 16 16 16 16 16 16 16 16 16 13 16 16 13 13 16 pass aim.5l_LatLon
Y Y Y Y 13 16 16 16 16 16 16 16 16 16 13 12 13 13 16 13 16 pass exp0
Y Y Y Y 14 16 16 16 16 16 16 16 22 16 16 16 13 16 16 22 16 pass exp1
Y Y Y Y 13 13 16 13 16 16 16 16 16 13 13 16 16 13 13 13 13 pass exp2
Y Y Y Y 16 16 16 16 16 16 16 16 22 16 16 16 16 16 16 16 16 pass exp4
Y Y Y Y 16 16 16 16 16 16 16 16 16 16 16 22 16 16 16 22 16 pass exp5
Y Y Y Y 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 16 pass front_relax
Y Y Y Y 14 16 16 13 13 16 16 13 13 16 13 13 16 12 13 13 16 pass global_ocean.90x40x15
Y Y Y Y 10 16 16 13 13 16 13 16 16 13 13 13 13 16 16 13 16 FAIL global_ocean.cs32x15
Y Y Y Y 6 11 12 13 13 12 13 16 13 9 9 9 9 10 9 9 11 FAIL global_ocean_pressure
Y Y Y Y 14 16 16 13 16 16 16 13 13 13 13 13 16 12 16 13 16 pass global_with_exf
Y Y Y Y 14 16 16 16 16 16 16 16 16 11 13 22 13 16 16 9 16 pass hs94.128x64x5
Y Y Y Y 13 16 16 16 16 16 16 16 16 11 16 16 16 13 16 22 13 pass hs94.1x64x5
Y Y Y Y 14 16 16 16 16 16 16 16 16 13 16 13 13 16 16 22 13 pass hs94.cs-32x32x5
Y Y Y Y 10 10 16 13 13 16 16 16 22 16 13 13 13 13 13 22 13 FAIL ideal_2D_oce
Y Y Y Y 8 16 16 16 16 16 16 16 16 13 13 8 16 16 16 16 16 FAIL internal_wave
Y Y Y Y 14 16 16 16 16 16 16 16 16 13 13 22 13 13 13 22 16 pass inverted_barometer
Y Y Y Y 12 16 16 16 16 16 16 16 16 16 13 12 13 13 13 13 13 FAIL lab_sea
Y Y Y Y 11 16 16 16 16 16 16 16 13 13 13 12 13 16 13 12 13 FAIL natl_box
Y Y Y Y 16 16 16 16 16 16 16 16 22 16 16 16 16 16 16 16 16 pass plume_on_slope
Y Y Y Y 13 16 16 16 16 13 16 16 16 16 16 16 16 13 16 16 16 pass solid-body.cs-32x32x1
modification to make gchem more versatile
o included PACKAGES_CONFIG.h in all files where the ALLOW_${PKG_NAME}
defines are used
o added comments where IF ( use${PKG_NAME} ) statements will probably
be needed -- or need to be edited
Merging from c51
Preparing next differentiable checkpoint and sync of MAIN vs. ecco-branch
Preparing next differentiable checkpoint and sync of MAIN vs. ecco-branch (updating store after changes in checkpoint50b_post, plus still messing around with init. sequence).
o somewhat cleaned package initialisation sequence for ctrl/ cost/ ecco/
Preparing next round of sync MAIN vs. ecco-branch and adjoint of next checkpoint. o somewhat cleaned package initialisation sequence for ctrl/ cost/ ecco/
add new package "land" ; move CALL AIM_INITIALISE from packages_readparms.F to packages_init_fixed.F
merging c49 and e27
call ZONAL_FILT_INIT only if useZONAL_FILT (avoid out-of-bounds index)
Add new flags: * T,S forcing outside Adams-Bashforh * temp,salt Advection and Forcing (turn on/off) * for each tracer: internal flag for multiDimAdvection & A-B
o missing call to obcs_diags o moved calls in packages_init_fixed to packages_readparms because some quantities are needed earlier.
Bringing comments up to data and formatting for document extraction.
Added package "flt". o pkg/flt o verification/flt_example o visualization of trajectories supplied o works but output not available to testscript
Merged changes from branch "branch-atmos-merge" into MAIN (checkpoint34) - substantial modifications to algorithm sequence (dynamics.F) - packaged OBCS, Shapiro filter, Zonal filter, Atmospheric Physics
Packaged OBCS (open boundary conditions) o source code now in pkg/obcs o controlled by namelist in data.obcs o includes Orlanski radiation condition (in same directory) o affects exp4 and internal_wave
file packages_init_fixed.F was initially added on branch branch-atmos-merge.
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