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Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
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============================== |
============================== |
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o tools/genmake2: |
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- change default makedepend from the system default to tools/xmakedepend: |
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When no makedepend is specified, select tools/xmakedepend it the test pass, |
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otherwise select the system default (if exist and pass the test) or |
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try to build cyrus-makedepend ; stop if none of the 3 works. |
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o pkg/exf & pkg/thsice: |
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- In case Energy-Reference-Level (ERL) is used (temp_EvPrRn=0), account |
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for energy content of Precip + RunOff & Evap. Assumes: |
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1) Rain has same temp as Air. |
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2) Snow has no heat capacity (consistent with seaice & thsice pkgs) |
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3) Run-Off comes at the temp of surface water (with same Cp) |
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4) Evap over ocean is released to the Atmos @ surf-temp (=SST); should be |
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put directly into Latent Heat flux & should use water-vapor heat capacity. |
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5) Evap over snow/seaice (pkg/thsice) assumes constant Lf+Lv (consistent |
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with snow having no Cp) => water vapor is released to Atmos @ 0^oC (=ERL). |
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o pkg/seaice: simplify the use of CPP flags in JFNK-related files |
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(compile when SEAICE_ALLOW_JFNK is defined) |
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o pkg/thsice: |
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- fix oceanic flux diagnostics & timeave (left from new sequence of calls |
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implementation): move THSICE_AVE call after the advection (called directly |
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from thsice_do_advect.F). |
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o verification/global_ocean.90x40x15 and OpenAD: |
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New experiment for OpenAD is identical to the one in input_ad except that |
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multiDimAdvection=.FALSE., |
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There is still an issue with this. |
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o pkg/thsice: |
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- account for ice velocity (ocean relative velocity) in turbulent heat flux |
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at the base of the ice; update output of global_ocean.cs32x15 (icedyn) |
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and offline_exf_seaice (main test). |
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checkpoint64f (2013/03/31) |
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o verification/OpenAD: |
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- new (smaller, without OAD_DEBUG) output_oadm.txt generated using gfortran. |
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o verification/isomip, pkg/shelfice and OpenAD: |
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- add OpenAD setup to this exp and make shelfice package work with OpenAD |
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o verification/tutorial_global_oce_biogeo: |
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- update AD and TLM output after turning off ALLOW_FE (in DIC_OPTIONS.h) |
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o verification/offline_exf_seaice: |
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- replace adjoint experiment (now similar to fwd input.thermo/ setup). |
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o verification/tutorial_tracer_adjsens, pkg/ptracers and OpenAD: |
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- add OpenAD setup to this exp and make ptracers package work with OpenAD |
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o pkg/seaice/seaice_evp.F: |
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mask the asymmetric contribution of the ice-ocean stress (when |
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the turningAngle is non-zero) over open water to avoid stripes |
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in the EVP-solutions after many EVP-substeps. This does not change |
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the verification experiment (because turningAngle=0 in that experiment), |
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but will affect other EVP solutions with turningAngle.ne.0 |
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o verification, AD & TLM output: |
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- new TAF version 2.3.10 (previously 2.3.8) add more parenthesis in multiple |
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additions and multiplications which affect results at machine truncation |
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level. Update few AD output (1D_ocean_ice_column, bottom_ctrl_5x5, |
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lab_sea.noseaicedyn & offline_exf_seaice) and TLM output |
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(1D_ocean_ice_column & tutorial_tracer_adjsens.som81) which had only 12 |
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digits of matching. |
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o pkg/seaice: |
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modify lsr-algorithm so that it vectorizes AND converges by using a |
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"zebra" method: split vector loop into two with step size 2; this |
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solves a general convergence problem for the JFNK solver on a vector |
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computer. It has the potential to even improve convergence for |
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non-vector machines, but it does change the results so it is turned |
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off by default. To turn on define CPP-flags SEAICE_VECTORIZE_LSR and |
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SEAICE_VECTORIZE_LSR_ZEBRA in SEAICE_OPTIONS.h |
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checkpoint64e (2013/03/05) |
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o pkg/ecco and several verification experiments: |
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Remove special versions of the_model_main.F, the_main_loop.F, forward_step.F |
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from ecco package, and revert to unified routine in model/src/ |
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Adjust verification experiments accordingly, especially gloal_oce_llc90 |
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Should conclude long-standing work by Gael to reconsile the_main_loop with |
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ECCO and will enable OpenAD's revolve loop in ECCO setup. |
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o pkg/generic_advdiff: |
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- implement compressible flow method for multi-dim advection (similar to |
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gad_som_advect.F); add new option "GAD_MULTIDIM_COMPRESSIBLE" (since |
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TAF generates many recomputations) to use it; no yet coded with implicit |
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vertical advection. |
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- change experiment advect_cs (new output) and advect_xy (same output) |
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to test compressible flow multi-dim advection. |
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o pkg/generic_advdiff: |
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- fix SOM advection for unusual cases (linear Free-Surf in r*, other |
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cases where linear Free-Surf is not @ k=1, e.g., useShelfIce) |
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o pkg/seaice: |
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- fix bug in the no-slip implementation in seaice_calc_strainrates.F, this |
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bug affects two verification experiments (lab_sea and lab_sea.hb87), |
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recover old (wrong) results by setting noSlipFac = 2. in |
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seaice_calc_strainrates.F; |
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- add another averaging method for etaZ (etaZmethod=3), a mix of 2 and 0 |
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- add runtime parameter SEAICE_JFNKepsilon for that finite difference |
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gradient in the Jacobian times vector operation (s/r seaice_jacvec) |
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- fix line search in seaice_jfnk.F (s/r seaice_jfnk_update) |
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o pkg/seaice: reorganize seaice_lsr.F to be able to reuse more code: |
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- new subroutines seaice_lsr_tridiagu/v |
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- introduce loop bounds i/jmin/max to be able to use a restricted |
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additive Schwarz method, but not used for now. |
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- rename SEAICE_CALC_LSR_COEFFS into SEAICE_LSR_CALC_COEFFS |
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- use new subroutines seaice_lsr_tridiagu/v in s/r seaice_preconditioner |
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o OpenAD support |
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Reorganize S/R call for overall time-stepping loop to facilitate |
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OpenAD revolve loop replacement |
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(new S/R main_do_loop.F) |
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o model/src: |
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- add 3-D array 3rd dimension to argument list of S/R ADAMS_BASHFORTH2/3; |
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- pkg/cheapaml: remove local S/R ADAMS2d and use instead standard S/R |
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ADAMS_BASHFORTH2. |
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o pkg/cheapaml: |
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- add new parameter (default=F, same as before) to disable full domain |
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(including land) periodicity in X & Y dir. |
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- new S/R CHEAPAML_COPY_EDGES to copy relaxation field into edges of |
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prognostics field ; merge the 2 S/R cycle_2d_tracer and timestep_2d_tracer |
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into single S/R CHEAPAML_TIMESTEP. |
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checkpoint64d (2013/02/17) |
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o pkg/monitor (angular momentum): |
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- do not add Eta contribution to the total AM if using rigid-lid; |
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- correct for Adams-Bashforth in zonal-wind part (instead of in AM_eta). |
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- horizontal discretisation: compute Zonal wind contribution separately for |
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each component (instead of from cell centered averaged) and use the 4 |
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grid-cell corner averaged value of Omega*(R*cos_Phi)^2 in AM_eta part. |
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- Check that AM is conserved with linear dynamics (momAdvection=F and linear |
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FreeSurf) if using vectorInvariant momentum. |
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o model/src (horizontal grid): |
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- move initialisation of all horizontal grid arrays to null value |
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from specific horizontal grid S/R to main S/R INI_GRID; |
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- add 2 new arrays to project model C-grid velocity on to zonal direction |
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(similar to AngleCosC & -AngleSinC but at U and V point location) and |
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compute them in S/R CALC_GRID_ANGLES. |
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o pkg/seaice: replace a hard coded parameter by a runtime parameter |
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SEAICE_JFNK_tolIter |
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o pkg/seaice: introduce a restricted additive Schwarz (RAS) method in |
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preconditioner for JFNK (run LSR into the overlaps as far as possible, |
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i.e OLx/y-2, but overwrite the solution in the overlaps) |
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- extend loop range in seaice_calc_viscosity |
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- add new parameters SEAICE_OLx/y (default = OLx/y-2) |
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- add flexible loop ranges to seaice_preconditioner, seaice_calc_lsr_coeffs |
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- slightly modify loops in tridiagonal solver lsr-preconditioner |
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- by default remove the extra exchange in seaice_preconditioner with a |
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replacement of an undocumented CPP flag by SEAICE_PRECOND_EXTRA_EXCHANGE |
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- modify offline_exf_seaice so that old results without RAS are reproduced |
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for output.dyn_jfnk.txt |
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in seaice_fgmres.F (unrelated to RAS) |
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- add a cpp-flag option for a re-ordered mapping (potentially more |
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efficient), but because this changes the results, turn it off by |
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default |
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- replace the save statement by local common blocks |
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o utils/matlab: |
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- fix tile-offset in rdmnc.m when output was produced using EXCH2. |
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- update cs_grid/bk_line scripts to use load_grid.m (in utils/matlab) |
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instead of local script "load_cs.m". |
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o pkg/seaice: |
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- fix a serious bug in seaice_fgmres.F, s/r seaice_scalprod, connected |
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to the scalarProductMetric and the unrolling. By chance this does not |
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change the verification experiment, because of the particular domain |
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decomposition |
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o pkg/diagnostics: |
o pkg/diagnostics: |
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- change default missing_value from UNSET_RL to -999. |
- change default missing_value from UNSET_RL to -999. |
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o pkg/layers: improve vectorization of layers_fluxcalc.F |
o pkg/layers: improve vectorization of layers_fluxcalc.F |
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- step 1: split loops, make TatU/V 2D arrays. This alone reduces the cpu |
- step 1: split loops, make TatU/V 2D arrays. This alone reduces the cpu |
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time spent in this routine by more than a factor of 3 on an NEC-SX8 |
time spent in this routine by more than a factor of 3 on an NEC-SX8 |
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- step 2: replace search algorithm by a bisection algorithm found in |
- step 2: replace search algorithm by a bisection algorithm found in |
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Press et al. Numerical Recipes in Fortran. This algorithm can be |
Press et al. Numerical Recipes in Fortran. This algorithm can be |
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vectorized and finds the correct bin in approx. log2(Nlayers) steps. |
vectorized and finds the correct bin in approx. log2(Nlayers) steps. |
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For now, use this algorithm only for TARGET_NEC_SX defined. |
For now, use this algorithm only for TARGET_NEC_SX defined. |
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- moved the search algorithm into a separate subroutine, that is kept |
- moved the search algorithm into a separate subroutine, that is kept |
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