from .c4s1_annotation import get_color_for_annotation_file, \
    convert_structure_annotation, \
    read_structure_annotation

from .c4s2_ssm import compute_sm_dot, plot_feature_ssm, \
    filter_diag_sm, \
    subplot_matrix_colorbar, \
    compute_tempo_rel_set, \
    filter_diag_mult_sm, \
    shift_cyc_matrix, \
    compute_sm_ti, \
    subplot_matrix_ti_colorbar, \
    compute_sm_from_filename

from .c4s2_synthetic_ssm import generate_ssm_from_annotation

from .c4s2_threshold import threshold_matrix_relative,  \
    threshold_matrix

from .c4s3_thumbnail import colormap_penalty, \
    normalization_properties_ssm, \
    plot_ssm_ann, plot_path_family, \
    plot_ssm_ann, \
    compute_induced_segment_family_coverage, \
    compute_accumulated_score_matrix, \
    compute_optimal_path_family, \
    compute_fitness, \
    plot_ssm_ann_optimal_path_family, \
    visualize_scape_plot, \
    compute_fitness_scape_plot, \
    seg_max_sp, plot_seg_in_sp, \
    plot_sp_ssm, check_segment

from .c4s4_structure_feature import compute_time_lag_representation, \
    novelty_structure_feature, \
    plot_ssm_structure_feature_nov

from .c4s4_novelty_kernel import compute_kernel_checkerboard_box, \
    compute_kernel_checkerboard_gaussian, \
    compute_novelty_ssm

from .c4s5_evaluation import measure_prf, \
    measure_prf_sets, \
    convert_ann_to_seq_label, \
    plot_seq_label, \
    compare_pairwise, \
    evaluate_pairwise, \
    plot_matrix_label, \
    plot_matrix_pairwise, \
    evaluate_boundary, \
    plot_boundary_measures