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/usr/lib/ruby/vendor_ruby/bio.rb
/usr/lib/ruby/vendor_ruby/bio/alignment.rb
/usr/lib/ruby/vendor_ruby/bio/appl/bl2seq/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast/format0.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast/format8.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast/genomenet.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast/ncbioptions.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast/remote.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast/rexml.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast/rpsblast.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blast/wublast.rb
/usr/lib/ruby/vendor_ruby/bio/appl/blat/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/clustalw.rb
/usr/lib/ruby/vendor_ruby/bio/appl/clustalw/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/emboss.rb
/usr/lib/ruby/vendor_ruby/bio/appl/fasta.rb
/usr/lib/ruby/vendor_ruby/bio/appl/fasta/format10.rb
/usr/lib/ruby/vendor_ruby/bio/appl/gcg/msf.rb
/usr/lib/ruby/vendor_ruby/bio/appl/gcg/seq.rb
/usr/lib/ruby/vendor_ruby/bio/appl/genscan/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/hmmer.rb
/usr/lib/ruby/vendor_ruby/bio/appl/hmmer/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/iprscan/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/mafft.rb
/usr/lib/ruby/vendor_ruby/bio/appl/mafft/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/meme/mast.rb
/usr/lib/ruby/vendor_ruby/bio/appl/meme/mast/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/meme/motif.rb
/usr/lib/ruby/vendor_ruby/bio/appl/muscle.rb
/usr/lib/ruby/vendor_ruby/bio/appl/paml/baseml.rb
/usr/lib/ruby/vendor_ruby/bio/appl/paml/baseml/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/paml/codeml.rb
/usr/lib/ruby/vendor_ruby/bio/appl/paml/codeml/rates.rb
/usr/lib/ruby/vendor_ruby/bio/appl/paml/codeml/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/paml/common.rb
/usr/lib/ruby/vendor_ruby/bio/appl/paml/common_report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/paml/yn00.rb
/usr/lib/ruby/vendor_ruby/bio/appl/paml/yn00/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/phylip/alignment.rb
/usr/lib/ruby/vendor_ruby/bio/appl/phylip/distance_matrix.rb
/usr/lib/ruby/vendor_ruby/bio/appl/probcons.rb
/usr/lib/ruby/vendor_ruby/bio/appl/psort.rb
/usr/lib/ruby/vendor_ruby/bio/appl/psort/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/pts1.rb
/usr/lib/ruby/vendor_ruby/bio/appl/sim4.rb
/usr/lib/ruby/vendor_ruby/bio/appl/sim4/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/sosui/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/spidey/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/targetp/report.rb
/usr/lib/ruby/vendor_ruby/bio/appl/tcoffee.rb
/usr/lib/ruby/vendor_ruby/bio/appl/tmhmm/report.rb
/usr/lib/ruby/vendor_ruby/bio/command.rb
/usr/lib/ruby/vendor_ruby/bio/compat/features.rb
/usr/lib/ruby/vendor_ruby/bio/compat/references.rb
/usr/lib/ruby/vendor_ruby/bio/data/aa.rb
/usr/lib/ruby/vendor_ruby/bio/data/codontable.rb
/usr/lib/ruby/vendor_ruby/bio/data/na.rb
/usr/lib/ruby/vendor_ruby/bio/db.rb
/usr/lib/ruby/vendor_ruby/bio/db/aaindex.rb
/usr/lib/ruby/vendor_ruby/bio/db/embl/common.rb
/usr/lib/ruby/vendor_ruby/bio/db/embl/embl.rb
/usr/lib/ruby/vendor_ruby/bio/db/embl/embl_to_biosequence.rb
/usr/lib/ruby/vendor_ruby/bio/db/embl/format_embl.rb
/usr/lib/ruby/vendor_ruby/bio/db/embl/sptr.rb
/usr/lib/ruby/vendor_ruby/bio/db/embl/swissprot.rb
/usr/lib/ruby/vendor_ruby/bio/db/embl/trembl.rb
/usr/lib/ruby/vendor_ruby/bio/db/embl/uniprot.rb
/usr/lib/ruby/vendor_ruby/bio/db/embl/uniprotkb.rb
/usr/lib/ruby/vendor_ruby/bio/db/fantom.rb
/usr/lib/ruby/vendor_ruby/bio/db/fasta.rb
/usr/lib/ruby/vendor_ruby/bio/db/fasta/defline.rb
/usr/lib/ruby/vendor_ruby/bio/db/fasta/fasta_to_biosequence.rb
/usr/lib/ruby/vendor_ruby/bio/db/fasta/format_fasta.rb
/usr/lib/ruby/vendor_ruby/bio/db/fasta/format_qual.rb
/usr/lib/ruby/vendor_ruby/bio/db/fasta/qual.rb
/usr/lib/ruby/vendor_ruby/bio/db/fasta/qual_to_biosequence.rb
/usr/lib/ruby/vendor_ruby/bio/db/fastq.rb
/usr/lib/ruby/vendor_ruby/bio/db/fastq/fastq_to_biosequence.rb
/usr/lib/ruby/vendor_ruby/bio/db/fastq/format_fastq.rb
/usr/lib/ruby/vendor_ruby/bio/db/genbank/common.rb
/usr/lib/ruby/vendor_ruby/bio/db/genbank/ddbj.rb
/usr/lib/ruby/vendor_ruby/bio/db/genbank/format_genbank.rb
/usr/lib/ruby/vendor_ruby/bio/db/genbank/genbank.rb
/usr/lib/ruby/vendor_ruby/bio/db/genbank/genbank_to_biosequence.rb
/usr/lib/ruby/vendor_ruby/bio/db/genbank/genpept.rb
/usr/lib/ruby/vendor_ruby/bio/db/genbank/refseq.rb
/usr/lib/ruby/vendor_ruby/bio/db/gff.rb
/usr/lib/ruby/vendor_ruby/bio/db/go.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/brite.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/common.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/compound.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/drug.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/enzyme.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/expression.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/genes.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/genome.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/glycan.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/keggtab.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/kgml.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/module.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/orthology.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/pathway.rb
/usr/lib/ruby/vendor_ruby/bio/db/kegg/reaction.rb
/usr/lib/ruby/vendor_ruby/bio/db/lasergene.rb
/usr/lib/ruby/vendor_ruby/bio/db/litdb.rb
/usr/lib/ruby/vendor_ruby/bio/db/medline.rb
/usr/lib/ruby/vendor_ruby/bio/db/nbrf.rb
/usr/lib/ruby/vendor_ruby/bio/db/newick.rb
/usr/lib/ruby/vendor_ruby/bio/db/nexus.rb
/usr/lib/ruby/vendor_ruby/bio/db/pdb.rb
/usr/lib/ruby/vendor_ruby/bio/db/pdb/atom.rb
/usr/lib/ruby/vendor_ruby/bio/db/pdb/chain.rb
/usr/lib/ruby/vendor_ruby/bio/db/pdb/chemicalcomponent.rb
/usr/lib/ruby/vendor_ruby/bio/db/pdb/model.rb
/usr/lib/ruby/vendor_ruby/bio/db/pdb/pdb.rb
/usr/lib/ruby/vendor_ruby/bio/db/pdb/residue.rb
/usr/lib/ruby/vendor_ruby/bio/db/pdb/utils.rb
/usr/lib/ruby/vendor_ruby/bio/db/prosite.rb
/usr/lib/ruby/vendor_ruby/bio/db/rebase.rb
/usr/lib/ruby/vendor_ruby/bio/db/sanger_chromatogram/abif.rb
/usr/lib/ruby/vendor_ruby/bio/db/sanger_chromatogram/chromatogram.rb
/usr/lib/ruby/vendor_ruby/bio/db/sanger_chromatogram/chromatogram_to_biosequence.rb
/usr/lib/ruby/vendor_ruby/bio/db/sanger_chromatogram/scf.rb
/usr/lib/ruby/vendor_ruby/bio/db/soft.rb
/usr/lib/ruby/vendor_ruby/bio/db/transfac.rb
/usr/lib/ruby/vendor_ruby/bio/feature.rb
/usr/lib/ruby/vendor_ruby/bio/io/das.rb
/usr/lib/ruby/vendor_ruby/bio/io/fastacmd.rb
/usr/lib/ruby/vendor_ruby/bio/io/fetch.rb
/usr/lib/ruby/vendor_ruby/bio/io/flatfile.rb
/usr/lib/ruby/vendor_ruby/bio/io/flatfile/autodetection.rb
/usr/lib/ruby/vendor_ruby/bio/io/flatfile/bdb.rb
/usr/lib/ruby/vendor_ruby/bio/io/flatfile/buffer.rb
/usr/lib/ruby/vendor_ruby/bio/io/flatfile/index.rb
/usr/lib/ruby/vendor_ruby/bio/io/flatfile/indexer.rb
/usr/lib/ruby/vendor_ruby/bio/io/flatfile/splitter.rb
/usr/lib/ruby/vendor_ruby/bio/io/hinv.rb
/usr/lib/ruby/vendor_ruby/bio/io/ncbirest.rb
/usr/lib/ruby/vendor_ruby/bio/io/pubmed.rb
/usr/lib/ruby/vendor_ruby/bio/io/registry.rb
/usr/lib/ruby/vendor_ruby/bio/io/togows.rb
/usr/lib/ruby/vendor_ruby/bio/location.rb
/usr/lib/ruby/vendor_ruby/bio/map.rb
/usr/lib/ruby/vendor_ruby/bio/pathway.rb
/usr/lib/ruby/vendor_ruby/bio/reference.rb
/usr/lib/ruby/vendor_ruby/bio/sequence.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/aa.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/adapter.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/common.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/compat.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/dblink.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/format.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/format_raw.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/generic.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/na.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/quality_score.rb
/usr/lib/ruby/vendor_ruby/bio/sequence/sequence_masker.rb
/usr/lib/ruby/vendor_ruby/bio/tree.rb
/usr/lib/ruby/vendor_ruby/bio/tree/output.rb
/usr/lib/ruby/vendor_ruby/bio/util/color_scheme.rb
/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/buried.rb
/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/helix.rb
/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/hydropathy.rb
/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/nucleotide.rb
/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/strand.rb
/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/taylor.rb
/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/turn.rb
/usr/lib/ruby/vendor_ruby/bio/util/color_scheme/zappo.rb
/usr/lib/ruby/vendor_ruby/bio/util/contingency_table.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/analysis.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/analysis_basic.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/cut_symbol.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/dense_int_array.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/aligned_strands.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/cut_location_pair.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/cut_location_pair_in_enzyme_notation.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/cut_locations.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/double_stranded/cut_locations_in_enzyme_notation.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/enzymes.yaml
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/cut_range.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/cut_ranges.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/horizontal_cut_range.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/sequence_range.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/sequence_range/calculated_cuts.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/sequence_range/fragment.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/sequence_range/fragments.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/range/vertical_cut_range.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/single_strand.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/single_strand/cut_locations_in_enzyme_notation.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/single_strand_complement.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/sorted_num_array.rb
/usr/lib/ruby/vendor_ruby/bio/util/restriction_enzyme/string_formatting.rb
/usr/lib/ruby/vendor_ruby/bio/util/sirna.rb
/usr/lib/ruby/vendor_ruby/bio/version.rb
/usr/share/doc-base/ruby-bio-tutorial
/usr/share/doc-base/ruby-bio-tutorial-ja
/usr/share/doc/ruby-bio/KNOWN_ISSUES.rdoc.gz
/usr/share/doc/ruby-bio/README.rdoc.gz
/usr/share/doc/ruby-bio/README_DEV.rdoc.gz
/usr/share/doc/ruby-bio/changelog.Debian.gz
/usr/share/doc/ruby-bio/changelog.gz
/usr/share/doc/ruby-bio/copyright
/usr/share/doc/ruby-bio/doc/ChangeLog-1.4.3.gz
/usr/share/doc/ruby-bio/doc/ChangeLog-1.5.0.gz
/usr/share/doc/ruby-bio/doc/ChangeLog-before-1.3.1.gz
/usr/share/doc/ruby-bio/doc/ChangeLog-before-1.4.2.gz
/usr/share/doc/ruby-bio/doc/Changes-0.7.rd.gz
/usr/share/doc/ruby-bio/doc/Changes-1.3.rdoc.gz
/usr/share/doc/ruby-bio/doc/RELEASE_NOTES-1.4.0.rdoc.gz
/usr/share/doc/ruby-bio/doc/RELEASE_NOTES-1.4.1.rdoc
/usr/share/doc/ruby-bio/doc/RELEASE_NOTES-1.4.2.rdoc.gz
/usr/share/doc/ruby-bio/doc/RELEASE_NOTES-1.4.3.rdoc.gz
/usr/share/doc/ruby-bio/doc/RELEASE_NOTES-1.5.0.rdoc.gz
/usr/share/doc/ruby-bio/doc/Tutorial.rd.gz
/usr/share/doc/ruby-bio/doc/Tutorial.rd.html
/usr/share/doc/ruby-bio/doc/Tutorial.rd.ja.gz
/usr/share/doc/ruby-bio/doc/Tutorial.rd.ja.html
/usr/share/doc/ruby-bio/doc/bioruby.css
/usr/share/doc/ruby-bio/examples/any2fasta.rb
/usr/share/doc/ruby-bio/examples/benchmark_clustalw_report.rb
/usr/share/doc/ruby-bio/examples/biofetch.rb
/usr/share/doc/ruby-bio/examples/color_scheme_aa.rb
/usr/share/doc/ruby-bio/examples/color_scheme_na.rb
/usr/share/doc/ruby-bio/examples/demo_aaindex.rb
/usr/share/doc/ruby-bio/examples/demo_aminoacid.rb
/usr/share/doc/ruby-bio/examples/demo_bl2seq_report.rb
/usr/share/doc/ruby-bio/examples/demo_blast_report.rb
/usr/share/doc/ruby-bio/examples/demo_codontable.rb
/usr/share/doc/ruby-bio/examples/demo_das.rb
/usr/share/doc/ruby-bio/examples/demo_fasta_remote.rb
/usr/share/doc/ruby-bio/examples/demo_fastaformat.rb
/usr/share/doc/ruby-bio/examples/demo_genbank.rb
/usr/share/doc/ruby-bio/examples/demo_genscan_report.rb
/usr/share/doc/ruby-bio/examples/demo_gff1.rb
/usr/share/doc/ruby-bio/examples/demo_go.rb
/usr/share/doc/ruby-bio/examples/demo_hmmer_report.rb
/usr/share/doc/ruby-bio/examples/demo_kegg_compound.rb
/usr/share/doc/ruby-bio/examples/demo_kegg_drug.rb
/usr/share/doc/ruby-bio/examples/demo_kegg_genome.rb
/usr/share/doc/ruby-bio/examples/demo_kegg_glycan.rb
/usr/share/doc/ruby-bio/examples/demo_kegg_orthology.rb
/usr/share/doc/ruby-bio/examples/demo_kegg_reaction.rb
/usr/share/doc/ruby-bio/examples/demo_litdb.rb
/usr/share/doc/ruby-bio/examples/demo_locations.rb
/usr/share/doc/ruby-bio/examples/demo_ncbi_rest.rb
/usr/share/doc/ruby-bio/examples/demo_nucleicacid.rb
/usr/share/doc/ruby-bio/examples/demo_pathway.rb
/usr/share/doc/ruby-bio/examples/demo_prosite.rb
/usr/share/doc/ruby-bio/examples/demo_psort.rb
/usr/share/doc/ruby-bio/examples/demo_psort_report.rb
/usr/share/doc/ruby-bio/examples/demo_pubmed.rb
/usr/share/doc/ruby-bio/examples/demo_sequence.rb
/usr/share/doc/ruby-bio/examples/demo_sirna.rb
/usr/share/doc/ruby-bio/examples/demo_sosui_report.rb
/usr/share/doc/ruby-bio/examples/demo_targetp_report.rb
/usr/share/doc/ruby-bio/examples/demo_tmhmm_report.rb
/usr/share/doc/ruby-bio/examples/enzymes.rb
/usr/share/doc/ruby-bio/examples/fasta2tab.rb
/usr/share/doc/ruby-bio/examples/fastagrep.rb
/usr/share/doc/ruby-bio/examples/fastasort.rb
/usr/share/doc/ruby-bio/examples/fastq2html.cwl
/usr/share/doc/ruby-bio/examples/fastq2html.rb
/usr/share/doc/ruby-bio/examples/fastq2html.testdata.yaml
/usr/share/doc/ruby-bio/examples/fsplit.rb
/usr/share/doc/ruby-bio/examples/gb2fasta.rb
/usr/share/doc/ruby-bio/examples/gb2tab.rb
/usr/share/doc/ruby-bio/examples/gbtab2mysql.rb
/usr/share/doc/ruby-bio/examples/genes2nuc.rb
/usr/share/doc/ruby-bio/examples/genes2pep.rb
/usr/share/doc/ruby-bio/examples/genes2tab.rb
/usr/share/doc/ruby-bio/examples/genome2rb.rb
/usr/share/doc/ruby-bio/examples/genome2tab.rb
/usr/share/doc/ruby-bio/examples/goslim.rb
/usr/share/doc/ruby-bio/examples/gt2fasta.rb
/usr/share/doc/ruby-bio/examples/na2aa.cwl
/usr/share/doc/ruby-bio/examples/na2aa.rb
/usr/share/doc/ruby-bio/examples/na2aa.testdata.yaml
/usr/share/doc/ruby-bio/examples/pmfetch.rb
/usr/share/doc/ruby-bio/examples/pmsearch.rb
/usr/share/doc/ruby-bio/examples/rev_comp.cwl
/usr/share/doc/ruby-bio/examples/rev_comp.rb
/usr/share/doc/ruby-bio/examples/rev_comp.testdata.yaml
/usr/share/doc/ruby-bio/examples/seqdatabase.ini
/usr/share/doc/ruby-bio/examples/ssearch2tab.rb
/usr/share/doc/ruby-bio/examples/tdiary.rb
/usr/share/doc/ruby-bio/examples/test_restriction_enzyme_long.rb
/usr/share/doc/ruby-bio/examples/tfastx2tab.rb
/usr/share/doc/ruby-bio/examples/vs-genes.rb
/usr/share/doc/ruby-bio/seqdatabase.ini
/usr/share/rubygems-integration/all/specifications/bio-2.0.1.gemspec