├── .gitattributes ├── .github └── workflows │ └── build_and_test.yml ├── .gitignore ├── .readthedocs.yaml ├── AUTHORS ├── INSTALL.txt ├── LICENSE ├── README.rst ├── docs ├── Makefile ├── environment.yml ├── make.bat └── source │ ├── conf.py │ ├── credits.rst │ ├── dev_guide.rst │ ├── images │ ├── HolopyCoordinateSystem.png │ ├── calc_cylinder.png │ ├── calc_multi.png │ ├── calc_sphere.png │ ├── calc_twosphere.png │ └── euler_matrix_eqn.png │ ├── index.rst │ ├── pyplots │ ├── basic_ps_recon.py │ ├── basic_recon.py │ ├── calc_scat_matr.py │ ├── calc_sphere.py │ ├── calc_two_spheres.py │ ├── show_bg_holo.py │ └── show_example_holo.py │ ├── releasenotes.rst │ ├── tutorial │ ├── calc_tutorial.rst │ ├── dda_tutorial.rst │ ├── fit_tutorial.rst │ ├── index.rst │ ├── install.rst │ ├── load_tutorial.rst │ ├── ps_recon_tutorial.rst │ └── recon_tutorial.rst │ └── users │ ├── concepts.rst │ ├── index.rst │ ├── scatterers.rst │ ├── theories.rst │ └── tools.rst ├── environment.yml ├── holopy ├── __init__.py ├── core │ ├── __init__.py │ ├── errors.py │ ├── holopy_object.py │ ├── io │ │ ├── __init__.py │ │ ├── io.py │ │ ├── meson.build │ │ ├── serialize.py │ │ └── vis.py │ ├── mapping.py │ ├── math.py │ ├── meson.build │ ├── metadata.py │ ├── prior.py │ ├── process │ │ ├── __init__.py │ │ ├── centerfinder.py │ │ ├── fourier.py │ │ ├── img_proc.py │ │ └── meson.build │ ├── tests │ │ ├── __init__.py │ │ ├── common.py │ │ ├── exampledata │ │ │ ├── 2colourbg0.jpg │ │ │ ├── 2colourbg1.jpg │ │ │ ├── 2colourbg2.jpg │ │ │ ├── 2colourbg3.jpg │ │ │ ├── bg01.jpg │ │ │ ├── bg02.jpg │ │ │ ├── bg03.jpg │ │ │ ├── df01.jpg │ │ │ ├── image0001.h5 │ │ │ ├── image0002.h5 │ │ │ ├── image0003.h5 │ │ │ ├── image01.jpg │ │ │ ├── ps_bg01.jpg │ │ │ └── ps_image01.jpg │ │ ├── meson.build │ │ ├── test_errors.py │ │ ├── test_io.py │ │ ├── test_mapping.py │ │ ├── test_metadata.py │ │ ├── test_pickle.py │ │ ├── test_prior.py │ │ ├── test_process.py │ │ ├── test_utils_math.py │ │ └── test_vis.py │ └── utils.py ├── inference │ ├── __init__.py │ ├── cmaes.py │ ├── emcee.py │ ├── interface.py │ ├── meson.build │ ├── model.py │ ├── nmpfit.py │ ├── result.py │ ├── scipyfit.py │ ├── tests │ │ ├── common.py │ │ ├── meson.build │ │ ├── test_cma.py │ │ ├── test_emcee.py │ │ ├── test_interface.py │ │ ├── test_minimizer.py │ │ ├── test_model.py │ │ ├── test_nmpfit.py │ │ ├── test_pickle.py │ │ ├── test_result.py │ │ ├── test_scipyfit.py │ │ └── test_third_party.py │ └── third_party │ │ ├── __init__.py │ │ ├── meson.build │ │ └── nmpfit.py ├── meson.build ├── propagation │ ├── __init__.py │ ├── convolution_propagation.py │ ├── meson.build │ ├── point_source_propagate.py │ └── tests │ │ ├── gold │ │ ├── full_data │ │ │ ├── README │ │ │ ├── gold_full_ps_recon.h5 │ │ │ └── gold_full_recon_single.h5 │ │ ├── gold_propagate_e_field.yaml │ │ ├── gold_ps_recon.yaml │ │ ├── gold_recon_multiple.yaml │ │ ├── gold_recon_multiple_gradient_filter.yaml │ │ ├── gold_recon_multiple_with_0.yaml │ │ └── gold_recon_single.yaml │ │ ├── test_propagation.py │ │ └── test_ps_propagate.py └── scattering │ ├── __init__.py │ ├── errors.py │ ├── imageformation.py │ ├── interface.py │ ├── meson.build │ ├── scatterer │ ├── __init__.py │ ├── bisphere.py │ ├── capsule.py │ ├── composite.py │ ├── csg.py │ ├── cylinder.py │ ├── ellipsoid.py │ ├── janus.py │ ├── meson.build │ ├── scatterer.py │ ├── sphere.py │ ├── spherecluster.py │ └── spheroid.py │ ├── tests │ ├── __init__.py │ ├── common.py │ ├── gold │ │ ├── full_data │ │ │ ├── README │ │ │ ├── gold_full_2_sphere_allow_overlap.h5 │ │ │ ├── gold_full_dda_csg.h5 │ │ │ ├── gold_full_dda_csg_rotated_div.h5 │ │ │ ├── gold_full_mie_multiple_holo.h5 │ │ │ ├── gold_full_shell.h5 │ │ │ └── gold_full_single_holo.h5 │ │ ├── gold_2_sphere_allow_overlap.yaml │ │ ├── gold_dda_csg.yaml │ │ ├── gold_dda_csg_rotated_div.yaml │ │ ├── gold_dda_voxelated_complex.yaml │ │ ├── gold_ellipsoid_dda.yaml │ │ ├── gold_farfield_matricies.yaml │ │ ├── gold_janus_dda.yaml │ │ ├── gold_mie_multiple_fields.yaml │ │ ├── gold_mie_multiple_holo.yaml │ │ ├── gold_mie_radiometric.yaml │ │ ├── gold_mie_scat_matrix.yaml │ │ ├── gold_multilayer.yaml │ │ ├── gold_shell.yaml │ │ ├── gold_single_field.yaml │ │ ├── gold_single_holo.yaml │ │ ├── gold_tmatrix_cylinder.yaml │ │ └── gold_tmatrix_spheroid.yaml │ ├── meson.build │ ├── test_2_color.py │ ├── test_basics.py │ ├── test_composite.py │ ├── test_dda.py │ ├── test_imageformation.py │ ├── test_interface.py │ ├── test_io.py │ ├── test_layeredmie.py │ ├── test_lens.py │ ├── test_lowlevel.py │ ├── test_mie.py │ ├── test_mielens.py │ ├── test_mielensfunctions.py │ ├── test_multisphere.py │ ├── test_pickle.py │ ├── test_scatterer.py │ ├── test_scatteringtheory.py │ ├── test_spherecluster.py │ └── test_tmatrix.py │ ├── theory │ ├── __init__.py │ ├── dda.py │ ├── lens.py │ ├── meson.build │ ├── mie.py │ ├── mie_f │ │ ├── MSTSM_f-90_permission.txt │ │ ├── __init__.py │ │ ├── meson.build │ │ ├── mie_specfuncs.py │ │ ├── mieangfuncs.f90 │ │ ├── miescatlib.py │ │ ├── multilayer_sphere_lib.py │ │ ├── scfodim.for │ │ ├── scsmfo1b_permissions.txt │ │ ├── scsmfo_min.for │ │ └── uts_scsmfo.for │ ├── mielens.py │ ├── mielensfunctions.py │ ├── multisphere.py │ ├── scatteringtheory.py │ ├── tmatrix.py │ └── tmatrix_f │ │ ├── S.f │ │ ├── __init__.py │ │ ├── ampld.lp.f │ │ ├── ampld.par.f │ │ ├── lpd.f │ │ ├── meson.build │ │ └── permissions.txt │ └── third_party │ ├── SBESJY.F │ ├── SBESJY_permissions.txt │ ├── __init__.py │ ├── csphjy.for │ └── meson.build ├── meson.build ├── pyproject.toml └── run_tests.py /.gitattributes: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/.gitattributes -------------------------------------------------------------------------------- /.github/workflows/build_and_test.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/.github/workflows/build_and_test.yml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/.gitignore -------------------------------------------------------------------------------- /.readthedocs.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/.readthedocs.yaml -------------------------------------------------------------------------------- /AUTHORS: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/AUTHORS -------------------------------------------------------------------------------- /INSTALL.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/INSTALL.txt -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/LICENSE -------------------------------------------------------------------------------- /README.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/README.rst -------------------------------------------------------------------------------- /docs/Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/Makefile -------------------------------------------------------------------------------- /docs/environment.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/environment.yml -------------------------------------------------------------------------------- /docs/make.bat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/make.bat -------------------------------------------------------------------------------- /docs/source/conf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/conf.py -------------------------------------------------------------------------------- /docs/source/credits.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/credits.rst -------------------------------------------------------------------------------- /docs/source/dev_guide.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/dev_guide.rst -------------------------------------------------------------------------------- /docs/source/images/HolopyCoordinateSystem.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/images/HolopyCoordinateSystem.png -------------------------------------------------------------------------------- /docs/source/images/calc_cylinder.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/images/calc_cylinder.png -------------------------------------------------------------------------------- /docs/source/images/calc_multi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/images/calc_multi.png -------------------------------------------------------------------------------- /docs/source/images/calc_sphere.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/images/calc_sphere.png -------------------------------------------------------------------------------- /docs/source/images/calc_twosphere.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/images/calc_twosphere.png -------------------------------------------------------------------------------- /docs/source/images/euler_matrix_eqn.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/images/euler_matrix_eqn.png -------------------------------------------------------------------------------- /docs/source/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/index.rst -------------------------------------------------------------------------------- /docs/source/pyplots/basic_ps_recon.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/pyplots/basic_ps_recon.py -------------------------------------------------------------------------------- /docs/source/pyplots/basic_recon.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/pyplots/basic_recon.py -------------------------------------------------------------------------------- /docs/source/pyplots/calc_scat_matr.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/pyplots/calc_scat_matr.py -------------------------------------------------------------------------------- /docs/source/pyplots/calc_sphere.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/pyplots/calc_sphere.py -------------------------------------------------------------------------------- /docs/source/pyplots/calc_two_spheres.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/pyplots/calc_two_spheres.py -------------------------------------------------------------------------------- /docs/source/pyplots/show_bg_holo.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/pyplots/show_bg_holo.py -------------------------------------------------------------------------------- /docs/source/pyplots/show_example_holo.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/pyplots/show_example_holo.py -------------------------------------------------------------------------------- /docs/source/releasenotes.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/releasenotes.rst -------------------------------------------------------------------------------- /docs/source/tutorial/calc_tutorial.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/tutorial/calc_tutorial.rst -------------------------------------------------------------------------------- /docs/source/tutorial/dda_tutorial.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/tutorial/dda_tutorial.rst -------------------------------------------------------------------------------- /docs/source/tutorial/fit_tutorial.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/tutorial/fit_tutorial.rst -------------------------------------------------------------------------------- /docs/source/tutorial/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/tutorial/index.rst -------------------------------------------------------------------------------- /docs/source/tutorial/install.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/tutorial/install.rst -------------------------------------------------------------------------------- /docs/source/tutorial/load_tutorial.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/tutorial/load_tutorial.rst -------------------------------------------------------------------------------- /docs/source/tutorial/ps_recon_tutorial.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/tutorial/ps_recon_tutorial.rst -------------------------------------------------------------------------------- /docs/source/tutorial/recon_tutorial.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/tutorial/recon_tutorial.rst -------------------------------------------------------------------------------- /docs/source/users/concepts.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/users/concepts.rst -------------------------------------------------------------------------------- /docs/source/users/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/users/index.rst -------------------------------------------------------------------------------- /docs/source/users/scatterers.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/users/scatterers.rst -------------------------------------------------------------------------------- /docs/source/users/theories.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/users/theories.rst -------------------------------------------------------------------------------- /docs/source/users/tools.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/docs/source/users/tools.rst -------------------------------------------------------------------------------- /environment.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/environment.yml -------------------------------------------------------------------------------- /holopy/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/__init__.py -------------------------------------------------------------------------------- /holopy/core/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/__init__.py -------------------------------------------------------------------------------- /holopy/core/errors.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/errors.py -------------------------------------------------------------------------------- /holopy/core/holopy_object.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/holopy_object.py -------------------------------------------------------------------------------- /holopy/core/io/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/io/__init__.py -------------------------------------------------------------------------------- /holopy/core/io/io.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/io/io.py -------------------------------------------------------------------------------- /holopy/core/io/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/io/meson.build -------------------------------------------------------------------------------- /holopy/core/io/serialize.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/io/serialize.py -------------------------------------------------------------------------------- /holopy/core/io/vis.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/io/vis.py -------------------------------------------------------------------------------- /holopy/core/mapping.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/mapping.py -------------------------------------------------------------------------------- /holopy/core/math.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/math.py -------------------------------------------------------------------------------- /holopy/core/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/meson.build -------------------------------------------------------------------------------- /holopy/core/metadata.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/metadata.py -------------------------------------------------------------------------------- /holopy/core/prior.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/prior.py -------------------------------------------------------------------------------- /holopy/core/process/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/process/__init__.py -------------------------------------------------------------------------------- /holopy/core/process/centerfinder.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/process/centerfinder.py -------------------------------------------------------------------------------- /holopy/core/process/fourier.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/process/fourier.py -------------------------------------------------------------------------------- /holopy/core/process/img_proc.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/process/img_proc.py -------------------------------------------------------------------------------- /holopy/core/process/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/process/meson.build -------------------------------------------------------------------------------- /holopy/core/tests/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /holopy/core/tests/common.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/common.py -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/2colourbg0.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/2colourbg0.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/2colourbg1.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/2colourbg1.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/2colourbg2.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/2colourbg2.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/2colourbg3.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/2colourbg3.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/bg01.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/bg01.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/bg02.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/bg02.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/bg03.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/bg03.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/df01.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/df01.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/image0001.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/image0001.h5 -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/image0002.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/image0002.h5 -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/image0003.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/image0003.h5 -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/image01.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/image01.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/ps_bg01.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/ps_bg01.jpg -------------------------------------------------------------------------------- /holopy/core/tests/exampledata/ps_image01.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/exampledata/ps_image01.jpg -------------------------------------------------------------------------------- /holopy/core/tests/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/meson.build -------------------------------------------------------------------------------- /holopy/core/tests/test_errors.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/test_errors.py -------------------------------------------------------------------------------- /holopy/core/tests/test_io.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/test_io.py -------------------------------------------------------------------------------- /holopy/core/tests/test_mapping.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/test_mapping.py -------------------------------------------------------------------------------- /holopy/core/tests/test_metadata.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/test_metadata.py -------------------------------------------------------------------------------- /holopy/core/tests/test_pickle.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/test_pickle.py -------------------------------------------------------------------------------- /holopy/core/tests/test_prior.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/test_prior.py -------------------------------------------------------------------------------- /holopy/core/tests/test_process.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/test_process.py -------------------------------------------------------------------------------- /holopy/core/tests/test_utils_math.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/test_utils_math.py -------------------------------------------------------------------------------- /holopy/core/tests/test_vis.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/tests/test_vis.py -------------------------------------------------------------------------------- /holopy/core/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/core/utils.py -------------------------------------------------------------------------------- /holopy/inference/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/__init__.py -------------------------------------------------------------------------------- /holopy/inference/cmaes.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/cmaes.py -------------------------------------------------------------------------------- /holopy/inference/emcee.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/emcee.py -------------------------------------------------------------------------------- /holopy/inference/interface.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/interface.py -------------------------------------------------------------------------------- /holopy/inference/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/meson.build -------------------------------------------------------------------------------- /holopy/inference/model.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/model.py -------------------------------------------------------------------------------- /holopy/inference/nmpfit.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/nmpfit.py -------------------------------------------------------------------------------- /holopy/inference/result.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/result.py -------------------------------------------------------------------------------- /holopy/inference/scipyfit.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/scipyfit.py -------------------------------------------------------------------------------- /holopy/inference/tests/common.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/common.py -------------------------------------------------------------------------------- /holopy/inference/tests/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/meson.build -------------------------------------------------------------------------------- /holopy/inference/tests/test_cma.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_cma.py -------------------------------------------------------------------------------- /holopy/inference/tests/test_emcee.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_emcee.py -------------------------------------------------------------------------------- /holopy/inference/tests/test_interface.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_interface.py -------------------------------------------------------------------------------- /holopy/inference/tests/test_minimizer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_minimizer.py -------------------------------------------------------------------------------- /holopy/inference/tests/test_model.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_model.py -------------------------------------------------------------------------------- /holopy/inference/tests/test_nmpfit.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_nmpfit.py -------------------------------------------------------------------------------- /holopy/inference/tests/test_pickle.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_pickle.py -------------------------------------------------------------------------------- /holopy/inference/tests/test_result.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_result.py -------------------------------------------------------------------------------- /holopy/inference/tests/test_scipyfit.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_scipyfit.py -------------------------------------------------------------------------------- /holopy/inference/tests/test_third_party.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/tests/test_third_party.py -------------------------------------------------------------------------------- /holopy/inference/third_party/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/third_party/__init__.py -------------------------------------------------------------------------------- /holopy/inference/third_party/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/third_party/meson.build -------------------------------------------------------------------------------- /holopy/inference/third_party/nmpfit.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/inference/third_party/nmpfit.py -------------------------------------------------------------------------------- /holopy/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/meson.build -------------------------------------------------------------------------------- /holopy/propagation/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/__init__.py -------------------------------------------------------------------------------- /holopy/propagation/convolution_propagation.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/convolution_propagation.py -------------------------------------------------------------------------------- /holopy/propagation/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/meson.build -------------------------------------------------------------------------------- /holopy/propagation/point_source_propagate.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/point_source_propagate.py -------------------------------------------------------------------------------- /holopy/propagation/tests/gold/full_data/README: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/gold/full_data/README -------------------------------------------------------------------------------- /holopy/propagation/tests/gold/full_data/gold_full_ps_recon.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/gold/full_data/gold_full_ps_recon.h5 -------------------------------------------------------------------------------- /holopy/propagation/tests/gold/full_data/gold_full_recon_single.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/gold/full_data/gold_full_recon_single.h5 -------------------------------------------------------------------------------- /holopy/propagation/tests/gold/gold_propagate_e_field.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/gold/gold_propagate_e_field.yaml -------------------------------------------------------------------------------- /holopy/propagation/tests/gold/gold_ps_recon.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/gold/gold_ps_recon.yaml -------------------------------------------------------------------------------- /holopy/propagation/tests/gold/gold_recon_multiple.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/gold/gold_recon_multiple.yaml -------------------------------------------------------------------------------- /holopy/propagation/tests/gold/gold_recon_multiple_gradient_filter.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/gold/gold_recon_multiple_gradient_filter.yaml -------------------------------------------------------------------------------- /holopy/propagation/tests/gold/gold_recon_multiple_with_0.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/gold/gold_recon_multiple_with_0.yaml -------------------------------------------------------------------------------- /holopy/propagation/tests/gold/gold_recon_single.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/gold/gold_recon_single.yaml -------------------------------------------------------------------------------- /holopy/propagation/tests/test_propagation.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/test_propagation.py -------------------------------------------------------------------------------- /holopy/propagation/tests/test_ps_propagate.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/propagation/tests/test_ps_propagate.py -------------------------------------------------------------------------------- /holopy/scattering/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/__init__.py -------------------------------------------------------------------------------- /holopy/scattering/errors.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/errors.py -------------------------------------------------------------------------------- /holopy/scattering/imageformation.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/imageformation.py -------------------------------------------------------------------------------- /holopy/scattering/interface.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/interface.py -------------------------------------------------------------------------------- /holopy/scattering/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/meson.build -------------------------------------------------------------------------------- /holopy/scattering/scatterer/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/__init__.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/bisphere.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/bisphere.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/capsule.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/capsule.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/composite.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/composite.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/csg.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/csg.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/cylinder.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/cylinder.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/ellipsoid.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/ellipsoid.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/janus.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/janus.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/meson.build -------------------------------------------------------------------------------- /holopy/scattering/scatterer/scatterer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/scatterer.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/sphere.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/sphere.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/spherecluster.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/spherecluster.py -------------------------------------------------------------------------------- /holopy/scattering/scatterer/spheroid.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/scatterer/spheroid.py -------------------------------------------------------------------------------- /holopy/scattering/tests/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /holopy/scattering/tests/common.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/common.py -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/full_data/README: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/full_data/README -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/full_data/gold_full_2_sphere_allow_overlap.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/full_data/gold_full_2_sphere_allow_overlap.h5 -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/full_data/gold_full_dda_csg.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/full_data/gold_full_dda_csg.h5 -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/full_data/gold_full_dda_csg_rotated_div.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/full_data/gold_full_dda_csg_rotated_div.h5 -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/full_data/gold_full_mie_multiple_holo.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/full_data/gold_full_mie_multiple_holo.h5 -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/full_data/gold_full_shell.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/full_data/gold_full_shell.h5 -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/full_data/gold_full_single_holo.h5: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/full_data/gold_full_single_holo.h5 -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_2_sphere_allow_overlap.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_2_sphere_allow_overlap.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_dda_csg.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_dda_csg.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_dda_csg_rotated_div.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_dda_csg_rotated_div.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_dda_voxelated_complex.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_dda_voxelated_complex.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_ellipsoid_dda.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_ellipsoid_dda.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_farfield_matricies.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_farfield_matricies.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_janus_dda.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_janus_dda.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_mie_multiple_fields.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_mie_multiple_fields.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_mie_multiple_holo.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_mie_multiple_holo.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_mie_radiometric.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_mie_radiometric.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_mie_scat_matrix.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_mie_scat_matrix.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_multilayer.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_multilayer.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_shell.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_shell.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_single_field.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_single_field.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_single_holo.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_single_holo.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_tmatrix_cylinder.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_tmatrix_cylinder.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/gold/gold_tmatrix_spheroid.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/gold/gold_tmatrix_spheroid.yaml -------------------------------------------------------------------------------- /holopy/scattering/tests/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/meson.build -------------------------------------------------------------------------------- /holopy/scattering/tests/test_2_color.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_2_color.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_basics.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_basics.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_composite.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_composite.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_dda.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_dda.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_imageformation.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_imageformation.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_interface.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_interface.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_io.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_io.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_layeredmie.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_layeredmie.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_lens.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_lens.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_lowlevel.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_lowlevel.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_mie.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_mie.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_mielens.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_mielens.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_mielensfunctions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_mielensfunctions.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_multisphere.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_multisphere.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_pickle.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_pickle.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_scatterer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_scatterer.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_scatteringtheory.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_scatteringtheory.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_spherecluster.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_spherecluster.py -------------------------------------------------------------------------------- /holopy/scattering/tests/test_tmatrix.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/tests/test_tmatrix.py -------------------------------------------------------------------------------- /holopy/scattering/theory/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/__init__.py -------------------------------------------------------------------------------- /holopy/scattering/theory/dda.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/dda.py -------------------------------------------------------------------------------- /holopy/scattering/theory/lens.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/lens.py -------------------------------------------------------------------------------- /holopy/scattering/theory/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/meson.build -------------------------------------------------------------------------------- /holopy/scattering/theory/mie.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie.py -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/MSTSM_f-90_permission.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/MSTSM_f-90_permission.txt -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/__init__.py -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/meson.build -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/mie_specfuncs.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/mie_specfuncs.py -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/mieangfuncs.f90: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/mieangfuncs.f90 -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/miescatlib.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/miescatlib.py -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/multilayer_sphere_lib.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/multilayer_sphere_lib.py -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/scfodim.for: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/scfodim.for -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/scsmfo1b_permissions.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/scsmfo1b_permissions.txt -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/scsmfo_min.for: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/scsmfo_min.for -------------------------------------------------------------------------------- /holopy/scattering/theory/mie_f/uts_scsmfo.for: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mie_f/uts_scsmfo.for -------------------------------------------------------------------------------- /holopy/scattering/theory/mielens.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mielens.py -------------------------------------------------------------------------------- /holopy/scattering/theory/mielensfunctions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/mielensfunctions.py -------------------------------------------------------------------------------- /holopy/scattering/theory/multisphere.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/multisphere.py -------------------------------------------------------------------------------- /holopy/scattering/theory/scatteringtheory.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/scatteringtheory.py -------------------------------------------------------------------------------- /holopy/scattering/theory/tmatrix.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/tmatrix.py -------------------------------------------------------------------------------- /holopy/scattering/theory/tmatrix_f/S.f: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/tmatrix_f/S.f -------------------------------------------------------------------------------- /holopy/scattering/theory/tmatrix_f/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /holopy/scattering/theory/tmatrix_f/ampld.lp.f: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/tmatrix_f/ampld.lp.f -------------------------------------------------------------------------------- /holopy/scattering/theory/tmatrix_f/ampld.par.f: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/tmatrix_f/ampld.par.f -------------------------------------------------------------------------------- /holopy/scattering/theory/tmatrix_f/lpd.f: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/tmatrix_f/lpd.f -------------------------------------------------------------------------------- /holopy/scattering/theory/tmatrix_f/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/tmatrix_f/meson.build -------------------------------------------------------------------------------- /holopy/scattering/theory/tmatrix_f/permissions.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/theory/tmatrix_f/permissions.txt -------------------------------------------------------------------------------- /holopy/scattering/third_party/SBESJY.F: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/third_party/SBESJY.F -------------------------------------------------------------------------------- /holopy/scattering/third_party/SBESJY_permissions.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/third_party/SBESJY_permissions.txt -------------------------------------------------------------------------------- /holopy/scattering/third_party/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/third_party/__init__.py -------------------------------------------------------------------------------- /holopy/scattering/third_party/csphjy.for: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/third_party/csphjy.for -------------------------------------------------------------------------------- /holopy/scattering/third_party/meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/holopy/scattering/third_party/meson.build -------------------------------------------------------------------------------- /meson.build: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/meson.build -------------------------------------------------------------------------------- /pyproject.toml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/pyproject.toml -------------------------------------------------------------------------------- /run_tests.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/manoharan-lab/holopy/HEAD/run_tests.py --------------------------------------------------------------------------------