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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
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).
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
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
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
file packages_init_fixed.F was initially added on branch branch-atmos-merge.
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