├── .gitignore ├── .travis.yml ├── LICENSE.txt ├── README.md ├── conda.recipe ├── environment.yaml └── meta.yaml ├── images ├── gui_1.png ├── gui_2.png ├── gui_3.png ├── gui_4.png ├── gui_5.png ├── poster.png ├── poster_vimeo.png ├── poster_youtube.png ├── small_1.png ├── small_2.png ├── small_3.png ├── small_4.png ├── small_5.png ├── spimagine_image.png ├── spimagine_logo.ico └── spimagine_logo.png ├── run_tests.sh ├── setup.cfg ├── setup.py ├── spimagine ├── __init__.py ├── __main__.py ├── bin │ ├── __init__.py │ ├── spim_render.py │ └── spimagine_gui.py ├── colormaps │ ├── all_colormaps.png │ ├── cmap_coolwarm.png │ ├── cmap_fire.png │ ├── cmap_grays.png │ ├── cmap_hot.png │ ├── cmap_inferno.png │ ├── cmap_jet.png │ ├── cmap_magma.png │ ├── cmap_plasma.png │ └── cmap_viridis.png ├── config │ ├── __init__.py │ ├── config.py │ ├── loadcolormaps.py │ └── myconfigparser.py ├── data │ └── mpi_logo_80.tif ├── gui │ ├── __init__.py │ ├── basic_window.py │ ├── floatslider.py │ ├── glwidget.py │ ├── gui_utils.py │ ├── imageprocessor_view.py │ ├── images │ │ ├── egg.png │ │ ├── egg_inactive.png │ │ ├── icon_backward.png │ │ ├── icon_camera.png │ │ ├── icon_camera_inactive.png │ │ ├── icon_center.jpg │ │ ├── icon_center.png │ │ ├── icon_colors.png │ │ ├── icon_distribute.png │ │ ├── icon_distribute_inactive.png │ │ ├── icon_filesave.png │ │ ├── icon_folder.png │ │ ├── icon_forward.png │ │ ├── icon_mainsettings_active.png │ │ ├── icon_mainsettings_inactive.png │ │ ├── icon_method_iso.png │ │ ├── icon_method_vol.png │ │ ├── icon_open.png │ │ ├── icon_pause.png │ │ ├── icon_proc_active.png │ │ ├── icon_proc_inactive.png │ │ ├── icon_process_active.png │ │ ├── icon_process_inactive.png │ │ ├── icon_processor_active.png │ │ ├── icon_processor_inactive.png │ │ ├── icon_record.png │ │ ├── icon_record_on.png │ │ ├── icon_rotate.png │ │ ├── icon_rotate_active.png │ │ ├── icon_save.png │ │ ├── icon_slice.png │ │ ├── icon_slice_inactive.png │ │ ├── icon_start.png │ │ ├── icon_trash.png │ │ ├── icon_volsettings_active.png │ │ ├── icon_volsettings_inactive.png │ │ ├── icon_x.png │ │ ├── icon_y.png │ │ ├── icon_z.png │ │ ├── rays_ortho.png │ │ ├── rays_persp.png │ │ ├── reset.jpg │ │ ├── reset.png │ │ ├── settings.png │ │ ├── settings_inactive.png │ │ ├── spimagine.png │ │ ├── splash.png │ │ ├── splash.xcf │ │ ├── video.png │ │ ├── video_inactive.png │ │ ├── wire_cube.png │ │ └── wire_cube_inactive.png │ ├── keyframe_view.py │ ├── mainsettings.py │ ├── mainwidget.py │ ├── mesh.py │ ├── multiple_file_dialog.py │ ├── shaders.py │ ├── shaders │ │ ├── box.frag │ │ ├── box.vert │ │ ├── mesh.frag │ │ ├── mesh.vert │ │ ├── mesh_light.frag │ │ ├── mesh_light.vert │ │ ├── slice.frag │ │ ├── slice.vert │ │ ├── texture.frag │ │ └── texture.vert │ ├── shape_dtype_dialog.py │ ├── slice_view.py │ ├── volsettings.py │ └── volshow.py ├── lib │ ├── __init__.py │ ├── czifile.py │ └── tifffile.py ├── models │ ├── __init__.py │ ├── data_model.py │ ├── imageprocessor.py │ ├── keyframe_model.py │ ├── overlay_volumes.py │ └── transform_model.py ├── utils │ ├── __init__.py │ ├── alpha_shape.py │ ├── egg3d.py │ ├── imgutils.py │ ├── jack_plugin.py │ ├── quaternion.py │ └── transform_matrices.py ├── version.py └── volumerender │ ├── __init__.py │ ├── kernels │ ├── all_render_kernels.cl │ ├── convolve_2d.cl │ ├── iso_kernel.cl │ ├── iso_kernel_tmp.cl │ ├── occlusion.cl │ ├── utils.cl │ └── volume_kernel.cl │ └── volumerender.py ├── tests ├── __init__.py ├── data │ ├── flybrain.tif │ ├── lena_2d.tif │ ├── raw_64_65_66.raw │ ├── spimdata │ │ ├── data │ │ │ ├── data.bin │ │ │ └── index.txt │ │ └── metadata.txt │ └── tiffstacks │ │ ├── t0.tiff │ │ ├── t1.tif │ │ ├── t2.tif │ │ └── t3.tif ├── run_tests.sh ├── test_config │ └── test_config.py ├── test_core │ └── test_compile.py ├── test_gui │ ├── embed.py │ ├── shaders │ │ ├── basic.frag │ │ └── basic.vert │ ├── test_bitdepth.py │ ├── test_combo.py │ ├── test_floatslider.py │ ├── test_opengl.py │ ├── test_opengl2.py │ 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