- a -

• ALPHA_MAX : psf_model.cpp
• ALPHA_MIN : psf_model.cpp
• ALPHA_MU : psf_model.cpp
• ALPHA_SIGMA : psf_model.cpp
• ALT_IN_FNAME : alternaria_gen.cpp , alternaria.cpp
• ALT_OUT_FNAME : alternaria.cpp , alternaria_gen.cpp
• ALT_PRO_FMT : alternaria.cpp
• ALT_SCENE_FMT : alternaria_gen.cpp , alternaria.cpp
• APERTURE : alternaria_gen.cpp , alternaria_viewer.cpp
• APICAL_DWIDTH_MAX : hypha.cpp
• APICAL_DWIDTH_MIN : hypha.cpp
• APICAL_DWIDTH_SIGMA : hypha.cpp
• APICAL_HYPHA_P : alternaria_model.cpp
• APICAL_LENGTH_MAX : hypha.cpp
• APICAL_LENGTH_MIN : hypha.cpp
• APICAL_LENGTH_MU : hypha.cpp
• APICAL_LENGTH_SIGMA : hypha.cpp
• APICAL_THETA_MAX : hypha.cpp
• APICAL_THETA_MIN : hypha.cpp
• APICAL_THETA_MU : hypha.cpp
• APICAL_THETA_SIGMA : hypha.cpp
• APICAL_WIDTH_MAX : hypha.cpp
• APICAL_WIDTH_MIN : hypha.cpp
• APICAL_WIDTH_MU : hypha.cpp
• APICAL_WIDTH_SIGMA : hypha.cpp

- b -

• BASE_LEVEL : alternaria_gen.cpp , alternaria.cpp
• BEST_INFO_FNAME : alternaria.cpp
• BETA_MAX : psf_model.cpp
• BETA_MIN : psf_model.cpp
• BETA_MU : psf_model.cpp
• BETA_SIGMA : psf_model.cpp
• BG_MAX : imaging_model.cpp
• BG_MIN : imaging_model.cpp
• BG_MU : imaging_model.cpp
• BG_SIGMA : imaging_model.cpp
• BLUERED : alternaria_viewer.cpp , alternaria_gen.cpp

- c -

• C_1_MAX : alternaria_model.cpp
• C_1_MIN : alternaria_model.cpp
• C_2_MAX : imaging_model.cpp
• C_2_MIN : imaging_model.cpp
• CAPTURE_FMT : alternaria_gen.cpp , alternaria_viewer.cpp
• CENTROID_MAX : alternaria_viewer.cpp , alternaria_gen.cpp
• CENTROID_MIN : alternaria_gen.cpp , alternaria_viewer.cpp
• CENTROID_X_MAX : hypha.cpp , spore.cpp
• CENTROID_X_MIN : hypha.cpp , spore.cpp
• CENTROID_Y_MAX : spore.cpp , hypha.cpp
• CENTROID_Y_MIN : hypha.cpp , spore.cpp
• CENTROID_Z_MAX : hypha.cpp , spore.cpp
• CENTROID_Z_MIN : hypha.cpp , spore.cpp
• CLIP_FAR : alternaria_gen.cpp , alternaria_viewer.cpp
• CLIP_NEAR : alternaria_viewer.cpp , alternaria_gen.cpp
• CYANRED : alternaria_gen.cpp , alternaria_viewer.cpp

- d -

• DATA_IMGS_NAMED : alternaria.cpp
• DD_SPORES_FNAME : alternaria.cpp
• DIST_MAX : alternaria_viewer.cpp
• DIST_MIN : alternaria_viewer.cpp
• DIST_MU : alternaria_viewer.cpp
• DIST_SIGMA : alternaria_viewer.cpp
• DWIDTH_MAX : alternaria_viewer.cpp
• DWIDTH_MIN : alternaria_viewer.cpp
• DWIDTH_SIGMA : alternaria_viewer.cpp

- g -

• GAMMA_MAX : psf_model.cpp
• GAMMA_MIN : psf_model.cpp
• GAMMA_MU : psf_model.cpp
• GAMMA_SIGMA : psf_model.cpp
• GLASSES_TYPE : alternaria_gen.cpp , alternaria_viewer.cpp
• GREENRED : alternaria_viewer.cpp , alternaria_gen.cpp

- i -

• IMG_IN_FNAME : alternaria_gen.cpp , alternaria.cpp
• IMG_OUT_FNAME : alternaria.cpp , alternaria_gen.cpp
• ITERATIONS : alternaria.cpp

- l -

• LAT_DIST_MAX : hypha.cpp
• LAT_DIST_MIN : hypha.cpp
• LAT_DIST_MU : hypha.cpp
• LAT_DIST_SIGMA : hypha.cpp
• LATERAL_HYPHA_1_P : alternaria_model.cpp
• LATERAL_HYPHA_N_P : alternaria_model.cpp
• LATERAL_LENGTH_MAX : hypha.cpp
• LATERAL_LENGTH_MIN : hypha.cpp
• LATERAL_LENGTH_MU : hypha.cpp
• LATERAL_LENGTH_SIGMA : hypha.cpp
• LATERAL_THETA_MAX : hypha.cpp
• LATERAL_THETA_MIN : hypha.cpp
• LATERAL_THETA_MU : hypha.cpp
• LATERAL_THETA_SIGMA : hypha.cpp
• LATERAL_WIDTH_MAX : hypha.cpp
• LATERAL_WIDTH_MIN : hypha.cpp
• LATERAL_WIDTH_MU : hypha.cpp
• LATERAL_WIDTH_SIGMA : hypha.cpp
• LENGTH_MAX : spore.cpp , alternaria_viewer.cpp
• LENGTH_MIN : alternaria_viewer.cpp , spore.cpp
• LENGTH_MU : spore.cpp , alternaria_viewer.cpp
• LENGTH_SIGMA : spore.cpp , alternaria_viewer.cpp

- m -

• MODEL_COMPARE_FNAME : alternaria_viewer.cpp
• MOVE_INFO_FNAME : alternaria.cpp

- n -

• NUM_LEVELS_P : alternaria_model.cpp
• NUM_SCENE_COLS : alternaria_gen.cpp
• NUM_SCENE_IMGS : alternaria_gen.cpp
• NUM_SCENE_ROWS : alternaria_gen.cpp
• NUM_STRUCTS : alternaria_gen.cpp

- o -

• OBJECT_SCALE : alternaria_gen.cpp , alternaria_viewer.cpp
• OPACITY_MAX : spore.cpp , alternaria_viewer.cpp , hypha.cpp
• OPACITY_MIN : alternaria_viewer.cpp , hypha.cpp , spore.cpp
• OPACITY_MU : hypha.cpp , spore.cpp , alternaria_viewer.cpp
• OPACITY_SIGMA : spore.cpp , hypha.cpp , alternaria_viewer.cpp

- p -

• PADDING_CONV : psf_model.cpp
• PADDING_FFT : psf_model.cpp
• PSF_H_FMT : alternaria.cpp , alternaria_gen.cpp
• PSF_IN_FNAME : alternaria_gen.cpp , alternaria.cpp
• PSF_OUT_FNAME : alternaria.cpp , alternaria_gen.cpp
• PSI_MAX : hypha.cpp , alternaria_viewer.cpp , spore.cpp
• PSI_MIN : spore.cpp , alternaria_viewer.cpp , hypha.cpp

- r -

• REDBLUE : alternaria_gen.cpp , alternaria_viewer.cpp
• REDCYAN : alternaria_viewer.cpp , alternaria_gen.cpp
• REDGREEN : alternaria_gen.cpp , alternaria_viewer.cpp
• RES_COL : alternaria.cpp
• RES_IMG : alternaria.cpp
• RES_ROW : alternaria.cpp

- s -

• SCALE_X : imaging_model.cpp
• SCALE_Y : imaging_model.cpp
• SCALE_Z : imaging_model.cpp
• SEED : alternaria_gen.cpp , alternaria.cpp
• SPORE_P : alternaria_model.cpp
• SURF_COMPARE_FNAME : alternaria_viewer.cpp
• SURF_PATCH_SIZE : alternaria_viewer.cpp

- t -

• THETA_MAX : spore.cpp , alternaria_viewer.cpp
• THETA_MIN : alternaria_viewer.cpp , spore.cpp
• THETA_MU : spore.cpp , alternaria_viewer.cpp
• THETA_SIGMA : alternaria_viewer.cpp , spore.cpp

- v -

• VIEW_HEIGHT : alternaria_gen.cpp , alternaria_viewer.cpp
• VIEW_WIDTH : alternaria_gen.cpp , alternaria_viewer.cpp

- w -

• WIDTH_MAX : spore.cpp , alternaria_viewer.cpp
• WIDTH_MIN : alternaria_viewer.cpp , spore.cpp
• WIDTH_MU : spore.cpp , alternaria_viewer.cpp
• WIDTH_SIGMA : alternaria_viewer.cpp , spore.cpp
• WINDOW_COL : imaging_model.cpp
• WINDOW_IMG : imaging_model.cpp
• WINDOW_NUM_COLS : imaging_model.cpp
• WINDOW_NUM_IMGS : imaging_model.cpp
• WINDOW_NUM_ROWS : imaging_model.cpp
• WINDOW_ROW : imaging_model.cpp