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# Not fiddling with .py endings because of reverse-dependencies expected from toil
# We shall revisit this decision once all packages for toil are in the distribution
# and we have learned more about how bx is used in the community in 3rd party scripts.
python-bx-tools: script-with-language-extension usr/bin/aggregate_scores_in_intervals.py
python-bx-tools: script-with-language-extension usr/bin/align_print_template.py
python-bx-tools: script-with-language-extension usr/bin/axt_extract_ranges.py
python-bx-tools: script-with-language-extension usr/bin/axt_to_fasta.py
python-bx-tools: script-with-language-extension usr/bin/axt_to_lav.py
python-bx-tools: script-with-language-extension usr/bin/axt_to_maf.py
python-bx-tools: script-with-language-extension usr/bin/bed_bigwig_profile.py
python-bx-tools: script-with-language-extension usr/bin/bed_build_windows.py
python-bx-tools: script-with-language-extension usr/bin/bed_complement.py
python-bx-tools: script-with-language-extension usr/bin/bed_count_by_interval.py
python-bx-tools: script-with-language-extension usr/bin/bed_count_overlapping.py
python-bx-tools: script-with-language-extension usr/bin/bed_coverage.py
python-bx-tools: script-with-language-extension usr/bin/bed_coverage_by_interval.py
python-bx-tools: script-with-language-extension usr/bin/bed_diff_basewise_summary.py
python-bx-tools: script-with-language-extension usr/bin/bed_extend_to.py
python-bx-tools: script-with-language-extension usr/bin/bed_intersect.py
python-bx-tools: script-with-language-extension usr/bin/bed_intersect_basewise.py
python-bx-tools: script-with-language-extension usr/bin/bed_merge_overlapping.py
python-bx-tools: script-with-language-extension usr/bin/bed_rand_intersect.py
python-bx-tools: script-with-language-extension usr/bin/bed_subtract_basewise.py
python-bx-tools: script-with-language-extension usr/bin/bnMapper.py
python-bx-tools: script-with-language-extension usr/bin/div_snp_table_chr.py
python-bx-tools: script-with-language-extension usr/bin/find_in_sorted_file.py
python-bx-tools: script-with-language-extension usr/bin/gene_fourfold_sites.py
python-bx-tools: script-with-language-extension usr/bin/get_scores_in_intervals.py
python-bx-tools: script-with-language-extension usr/bin/int_seqs_to_char_strings.py
python-bx-tools: script-with-language-extension usr/bin/interval_count_intersections.py
python-bx-tools: script-with-language-extension usr/bin/interval_join.py
python-bx-tools: script-with-language-extension usr/bin/lav_to_axt.py
python-bx-tools: script-with-language-extension usr/bin/lav_to_maf.py
python-bx-tools: script-with-language-extension usr/bin/line_select.py
python-bx-tools: script-with-language-extension usr/bin/lzop_build_offset_table.py
python-bx-tools: script-with-language-extension usr/bin/mMK_bitset.py
python-bx-tools: script-with-language-extension usr/bin/maf_build_index.py
python-bx-tools: script-with-language-extension usr/bin/maf_chop.py
python-bx-tools: script-with-language-extension usr/bin/maf_chunk.py
python-bx-tools: script-with-language-extension usr/bin/maf_col_counts.py
python-bx-tools: script-with-language-extension usr/bin/maf_col_counts_all.py
python-bx-tools: script-with-language-extension usr/bin/maf_count.py
python-bx-tools: script-with-language-extension usr/bin/maf_covered_ranges.py
python-bx-tools: script-with-language-extension usr/bin/maf_covered_regions.py
python-bx-tools: script-with-language-extension usr/bin/maf_div_sites.py
python-bx-tools: script-with-language-extension usr/bin/maf_drop_overlapping.py
python-bx-tools: script-with-language-extension usr/bin/maf_extract_chrom_ranges.py
python-bx-tools: script-with-language-extension usr/bin/maf_extract_ranges.py
python-bx-tools: script-with-language-extension usr/bin/maf_extract_ranges_indexed.py
python-bx-tools: script-with-language-extension usr/bin/maf_filter.py
python-bx-tools: script-with-language-extension usr/bin/maf_filter_max_wc.py
python-bx-tools: script-with-language-extension usr/bin/maf_gap_frequency.py
python-bx-tools: script-with-language-extension usr/bin/maf_gc_content.py
python-bx-tools: script-with-language-extension usr/bin/maf_interval_alignibility.py
python-bx-tools: script-with-language-extension usr/bin/maf_limit_to_species.py
python-bx-tools: script-with-language-extension usr/bin/maf_mapping_word_frequency.py
python-bx-tools: script-with-language-extension usr/bin/maf_mask_cpg.py
python-bx-tools: script-with-language-extension usr/bin/maf_mean_length_ungapped_piece.py
python-bx-tools: script-with-language-extension usr/bin/maf_percent_columns_matching.py
python-bx-tools: script-with-language-extension usr/bin/maf_percent_identity.py
python-bx-tools: script-with-language-extension usr/bin/maf_print_chroms.py
python-bx-tools: script-with-language-extension usr/bin/maf_print_scores.py
python-bx-tools: script-with-language-extension usr/bin/maf_randomize.py
python-bx-tools: script-with-language-extension usr/bin/maf_region_coverage_by_src.py
python-bx-tools: script-with-language-extension usr/bin/maf_select.py
python-bx-tools: script-with-language-extension usr/bin/maf_shuffle_columns.py
python-bx-tools: script-with-language-extension usr/bin/maf_species_in_all_files.py
python-bx-tools: script-with-language-extension usr/bin/maf_split_by_src.py
python-bx-tools: script-with-language-extension usr/bin/maf_thread_for_species.py
python-bx-tools: script-with-language-extension usr/bin/maf_tile.py
python-bx-tools: script-with-language-extension usr/bin/maf_tile_2.py
python-bx-tools: script-with-language-extension usr/bin/maf_tile_2bit.py
python-bx-tools: script-with-language-extension usr/bin/maf_to_axt.py
python-bx-tools: script-with-language-extension usr/bin/maf_to_concat_fasta.py
python-bx-tools: script-with-language-extension usr/bin/maf_to_fasta.py
python-bx-tools: script-with-language-extension usr/bin/maf_to_int_seqs.py
python-bx-tools: script-with-language-extension usr/bin/maf_translate_chars.py
python-bx-tools: script-with-language-extension usr/bin/maf_truncate.py
python-bx-tools: script-with-language-extension usr/bin/maf_word_frequency.py
python-bx-tools: script-with-language-extension usr/bin/mask_quality.py
python-bx-tools: script-with-language-extension usr/bin/nib_chrom_intervals_to_fasta.py
python-bx-tools: script-with-language-extension usr/bin/nib_intervals_to_fasta.py
python-bx-tools: script-with-language-extension usr/bin/nib_length.py
python-bx-tools: script-with-language-extension usr/bin/one_field_per_line.py
python-bx-tools: script-with-language-extension usr/bin/out_to_chain.py
python-bx-tools: script-with-language-extension usr/bin/prefix_lines.py
python-bx-tools: script-with-language-extension usr/bin/pretty_table.py
python-bx-tools: script-with-language-extension usr/bin/qv_to_bqv.py
python-bx-tools: script-with-language-extension usr/bin/random_lines.py
python-bx-tools: script-with-language-extension usr/bin/table_add_column.py
python-bx-tools: script-with-language-extension usr/bin/table_filter.py
python-bx-tools: script-with-language-extension usr/bin/tfloc_summary.py
python-bx-tools: script-with-language-extension usr/bin/ucsc_gene_table_to_intervals.py
python-bx-tools: script-with-language-extension usr/bin/wiggle_to_array_tree.py
python-bx-tools: script-with-language-extension usr/bin/wiggle_to_binned_array.py
python-bx-tools: script-with-language-extension usr/bin/wiggle_to_chr_binned_array.py
python-bx-tools: script-with-language-extension usr/bin/wiggle_to_simple.py
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