WIP: loop_in_chunks over owned points#1895

Merged

stevengj merged 161 commits intoNanoComp:masterfrom mochen4:loop-in-chunk-fix

Mar 10, 2022

+61-72

Commits on Jun 3, 2021

rm hack to loop over centered grid
stevengj
committed

Commits on Jan 5, 2022

fix and example

Mo Chen
authored and
Mo Chen
committed

Commits on Jan 11, 2022

fix draft

Mo Chen
authored and
Mo Chen
committed
almost fix

Mo Chen
authored and
Mo Chen
committed
before fix

Mo Chen
authored and
Mo Chen
committed

Commits on Jan 12, 2022

one more loop over num_chunk

Mo Chen
authored and
Mo Chen
committed
include set

Mo Chen
authored and
Mo Chen
committed

Commits on Jan 27, 2022

different approach

Mo Chen
authored and
Mo Chen
committed
minor

Mo Chen
authored and
Mo Chen
committed
include climits

Mo Chen
authored and
Mo Chen
committed
include climits

Mo Chen
authored and
Mo Chen
committed
fix retval

Mo Chen
authored and
Mo Chen
committed
clean up

Mo Chen
authored and
Mo Chen
committed

Commits on Feb 10, 2022

using flipped

Mo Chen
authored and
Mo Chen
committed

Commits on Feb 11, 2022

add missing changes

Mo Chen
authored and
Mo Chen
committed

Commits on Feb 12, 2022

fix bug

Mo Chen
authored and
Mo Chen
committed
fix pml

Mo Chen
authored and
Mo Chen
committed

Commits on Feb 16, 2022

Fix memory leaks in SWIG wrappers. (NanoComp#1826 )

authored and
Mo Chen
committed
Fix adjoint gradient with conductivities (NanoComp#1830 )

authored and
Mo Chen
committed
plot geometry for dispersive materials without initializing structure object (NanoComp#1827 )

oskooi
authored and
Mo Chen
committed
unit test for get_epsilon_grid (NanoComp#1835 )

oskooi
authored and
Mo Chen
committed
support for single-precision floating point for fields array functions (NanoComp#1833 )

oskooi
authored and
Mo Chen
committed
Fix memory leaks (NanoComp#1839 )

kkg4theweb
authored and
Mo Chen
committed
Fix for Issue NanoComp#1834 (NanoComp#1840 )

kkg4theweb
authored and
Mo Chen
committed
use unique_ptr (C++11) instead of make_unique (C++14) (NanoComp#1844 )

stevengj
authored and
Mo Chen
committed
Use None instead of empty list in constructors (NanoComp#1846 )

authored and
Mo Chen
committed
Define what happens when β=∞ and u=η (NanoComp#1842 )

authored and
Mo Chen
committed
fix for arrays (NanoComp#1845 )

smartalecH
authored and
Mo Chen
committed
minor improvements to docs (NanoComp#1848 )

oskooi
authored and
Mo Chen
committed
update homebrew instructions for hdf5 and openblas

stevengj
authored and
Mo Chen
committed
recommend python3 on macos

stevengj
authored and
Mo Chen
committed
silence compiler warnings

stevengj
authored and
Mo Chen
committed
whoops, missing commit

stevengj
authored and
Mo Chen
committed
tests need scipy and autograd

stevengj
authored and
Mo Chen
committed
missing sudo

stevengj
authored and
Mo Chen
committed
parameterized package is also used for tests

stevengj
authored and
Mo Chen
committed
h5py and jax on mac

stevengj
authored and
Mo Chen
committed
note on autogen.sh for git clone

stevengj
authored and
Mo Chen
committed
xcode installation shortcut

stevengj
authored and
Mo Chen
committed
bug fix for get_epsilon_point and cell boundary in parallel simulation (NanoComp#1849 )

oskooi
authored and
Mo Chen
committed
unit test for conductivity (NanoComp#1857 )

authored and
Mo Chen
committed
Fix the failure message for absorber 1D test (NanoComp#1859 )

ahoenselaar
authored and
Mo Chen
committed
add missing fixed field phase to MPB unit test (NanoComp#1860 )

oskooi
authored and
Mo Chen
committed
fix memory leak in array-slice-ll.cpp (NanoComp#1865 )

oskooi
authored and
Mo Chen
committed
fix memory leak in cyl-ellipsoid-ll.cpp (NanoComp#1866 )

oskooi
authored and
Mo Chen
committed
level parameter for contour plot calls epsilon data (NanoComp#1869 )

simbilod
authored and
Mo Chen
committed
fix heap buffer overflow error for update E from D in cylindrical coordinates (NanoComp#1871 )

oskooi
authored and
Mo Chen
committed
Add cylindrical coordinates support for plot2d (NanoComp#1873 )

smartalecH
authored and
Mo Chen
committed
fix near-field monitor position in cylindrical coordinate tutorial (NanoComp#1874 )

oskooi
authored and
Mo Chen
committed
fix memory leaks in structure and fields load during checkpointing (NanoComp#1872 )

oskooi
authored and
Mo Chen
committed
fix two memory leaks in geom_epsilon class (NanoComp#1877 )

oskooi
authored and
Mo Chen
committed
include ring-ll.cpp in C++ unit tests (NanoComp#1878 )

oskooi
authored and
Mo Chen
committed
fix and example

Mo Chen
authored and
Mo Chen
committed
first draft of loop_in_chunks using grid_vol calculations

stevengj
authored and
Mo Chen
committed
try to only use owned points in loop_in_chunks

stevengj
authored and
Mo Chen
committed
don't unpad if !use_symmetry

stevengj
authored and
Mo Chen
committed
stop vscode from complaining about comments

stevengj
authored and
Mo Chen
committed
rm hack to loop over centered grid

stevengj
authored and
Mo Chen
committed
almost fix

Mo Chen
authored and
Mo Chen
committed
before fix

Mo Chen
authored and
Mo Chen
committed
one more loop over num_chunk

Mo Chen
authored and
Mo Chen
committed
include set

Mo Chen
authored and
Mo Chen
committed
different approach

Mo Chen
authored and
Mo Chen
committed
minor

Mo Chen
authored and
Mo Chen
committed
include climits

Mo Chen
authored and
Mo Chen
committed
include climits

Mo Chen
authored and
Mo Chen
committed
fix retval

Mo Chen
authored and
Mo Chen
committed
clean up

Mo Chen
authored and
Mo Chen
committed
using flipped

Mo Chen
authored and
Mo Chen
committed
add missing changes

Mo Chen
authored and
Mo Chen
committed
fix bug

Mo Chen
authored and
Mo Chen
committed
fix pml

Mo Chen
authored and
Mo Chen
committed
Merge branch 'loop-in-chunk-fix' of https://github.com/mochen4/meep into loop-in-chunk-fixes

Mo Chen
authored and
Mo Chen
committed
Fix memory leaks in SWIG wrappers. (NanoComp#1826 )

authored and
Mo Chen
committed
Fix adjoint gradient with conductivities (NanoComp#1830 )

authored and
Mo Chen
committed
plot geometry for dispersive materials without initializing structure object (NanoComp#1827 )

oskooi
authored and
Mo Chen
committed
unit test for get_epsilon_grid (NanoComp#1835 )

oskooi
authored and
Mo Chen
committed
support for single-precision floating point for fields array functions (NanoComp#1833 )

oskooi
authored and
Mo Chen
committed
Fix memory leaks (NanoComp#1839 )

kkg4theweb
authored and
Mo Chen
committed
Fix for Issue NanoComp#1834 (NanoComp#1840 )

kkg4theweb
authored and
Mo Chen
committed
use unique_ptr (C++11) instead of make_unique (C++14) (NanoComp#1844 )

stevengj
authored and
Mo Chen
committed
Use None instead of empty list in constructors (NanoComp#1846 )

authored and
Mo Chen
committed
Define what happens when β=∞ and u=η (NanoComp#1842 )

authored and
Mo Chen
committed
fix for arrays (NanoComp#1845 )

smartalecH
authored and
Mo Chen
committed
minor improvements to docs (NanoComp#1848 )

oskooi
authored and
Mo Chen
committed
update homebrew instructions for hdf5 and openblas

stevengj
authored and
Mo Chen
committed
recommend python3 on macos

stevengj
authored and
Mo Chen
committed
silence compiler warnings

stevengj
authored and
Mo Chen
committed
whoops, missing commit

stevengj
authored and
Mo Chen
committed
tests need scipy and autograd

stevengj
authored and
Mo Chen
committed
missing sudo

stevengj
authored and
Mo Chen
committed
parameterized package is also used for tests

stevengj
authored and
Mo Chen
committed
h5py and jax on mac

stevengj
authored and
Mo Chen
committed
note on autogen.sh for git clone

stevengj
authored and
Mo Chen
committed
xcode installation shortcut

stevengj
authored and
Mo Chen
committed
bug fix for get_epsilon_point and cell boundary in parallel simulation (NanoComp#1849 )

oskooi
authored and
Mo Chen
committed
unit test for conductivity (NanoComp#1857 )

authored and
Mo Chen
committed
Fix the failure message for absorber 1D test (NanoComp#1859 )

ahoenselaar
authored and
Mo Chen
committed
add missing fixed field phase to MPB unit test (NanoComp#1860 )

oskooi
authored and
Mo Chen
committed
fix memory leak in array-slice-ll.cpp (NanoComp#1865 )

oskooi
authored and
Mo Chen
committed
fix memory leak in cyl-ellipsoid-ll.cpp (NanoComp#1866 )

oskooi
authored and
Mo Chen
committed
level parameter for contour plot calls epsilon data (NanoComp#1869 )

simbilod
authored and
Mo Chen
committed
fix heap buffer overflow error for update E from D in cylindrical coordinates (NanoComp#1871 )

oskooi
authored and
Mo Chen
committed
Add cylindrical coordinates support for plot2d (NanoComp#1873 )

smartalecH
authored and
Mo Chen
committed
fix near-field monitor position in cylindrical coordinate tutorial (NanoComp#1874 )

oskooi
authored and
Mo Chen
committed
fix memory leaks in structure and fields load during checkpointing (NanoComp#1872 )

oskooi
authored and
Mo Chen
committed
fix two memory leaks in geom_epsilon class (NanoComp#1877 )

oskooi
authored and
Mo Chen
committed
include ring-ll.cpp in C++ unit tests (NanoComp#1878 )

oskooi
authored and
Mo Chen
committed
fix and example

Mo Chen
authored and
Mo Chen
committed
first draft of loop_in_chunks using grid_vol calculations

stevengj
authored and
Mo Chen
committed
try to only use owned points in loop_in_chunks

stevengj
authored and
Mo Chen
committed
don't unpad if !use_symmetry

stevengj
authored and
Mo Chen
committed
stop vscode from complaining about comments

stevengj
authored and
Mo Chen
committed
rm hack to loop over centered grid

stevengj
authored and
Mo Chen
committed
almost fix

Mo Chen
authored and
Mo Chen
committed
before fix

Mo Chen
authored and
Mo Chen
committed
one more loop over num_chunk

Mo Chen
authored and
Mo Chen
committed
include set

Mo Chen
authored and
Mo Chen
committed
different approach

Mo Chen
authored and
Mo Chen
committed
minor

Mo Chen
authored and
Mo Chen
committed
include climits

Mo Chen
authored and
Mo Chen
committed
include climits

Mo Chen
authored and
Mo Chen
committed
fix retval

Mo Chen
authored and
Mo Chen
committed
clean up

Mo Chen
authored and
Mo Chen
committed
using flipped

Mo Chen
authored and
Mo Chen
committed
add missing changes

Mo Chen
authored and
Mo Chen
committed
fix bug

Mo Chen
authored and
Mo Chen
committed
fix pml

Mo Chen
authored and
Mo Chen
committed
Fix adjoint gradient with conductivities (NanoComp#1830 )

authored and
Mo Chen
committed
plot geometry for dispersive materials without initializing structure object (NanoComp#1827 )

oskooi
authored and
Mo Chen
committed
support for single-precision floating point for fields array functions (NanoComp#1833 )

oskooi
authored and
Mo Chen
committed
Fix memory leaks (NanoComp#1839 )

kkg4theweb
authored and
Mo Chen
committed
Fix for Issue NanoComp#1834 (NanoComp#1840 )

kkg4theweb
authored and
Mo Chen
committed
use unique_ptr (C++11) instead of make_unique (C++14) (NanoComp#1844 )

stevengj
authored and
Mo Chen
committed
update homebrew instructions for hdf5 and openblas

stevengj
authored and
Mo Chen
committed
rm hack to loop over centered grid

stevengj
authored and
Mo Chen
committed
almost fix

Mo Chen
authored and
Mo Chen
committed
one more loop over num_chunk

Mo Chen
authored and
Mo Chen
committed
different approach

Mo Chen
authored and
Mo Chen
committed
include climits

Mo Chen
authored and
Mo Chen
committed
include climits

Mo Chen
authored and
Mo Chen
committed
clean up

Mo Chen
authored and
Mo Chen
committed
using flipped

Mo Chen
authored and
Mo Chen
committed
rebase

Mo Chen
authored and
Mo Chen
committed
Revert "fix pml"

Mo Chen
authored and
Mo Chen
committed
Merge branch 'loop-in-chunk-fix' of https://github.com/mochen4/meep into loop-in-chunk-fix

Mo Chen
authored and
Mo Chen
committed
Merge branch 'master' into loop-in-chunk-fix
mochen4
authored
fix rebase

Mo Chen
authored and
Mo Chen
committed
rebase

Mo Chen
authored and
Mo Chen
committed
fix rebase

Mo Chen
authored and
Mo Chen
committed
fix rebase

Mo Chen
authored and
Mo Chen
committed
fix rebase

Mo Chen
authored and
Mo Chen
committed
fix rebase

Mo Chen
authored and
Mo Chen
committed

Commits on Feb 21, 2022

fix error

Mo Chen
authored and
Mo Chen
committed
increase tol

Mo Chen
authored and
Mo Chen
committed

Commits on Feb 24, 2022

cleanup

Mo Chen
authored and
Mo Chen
committed

Commits on Mar 8, 2022

cleanup

Mo Chen
authored and
Mo Chen
committed

Commits

Commits on May 24, 2021

Commits on Jun 3, 2021

Commits on Jan 5, 2022

Commits on Jan 11, 2022

Commits on Jan 12, 2022

Commits on Jan 27, 2022

Commits on Feb 10, 2022

Commits on Feb 11, 2022

Commits on Feb 12, 2022

Commits on Feb 16, 2022