# This file is automatically generated from bioruby.gemspec.erb and # should NOT be edited by hand. # Gem::Specification.new do |s| s.name = 'bio' s.version = "1.3.1" s.author = "BioRuby project" s.email = "staff@bioruby.org" s.homepage = "http://bioruby.org/" s.rubyforge_project = "bioruby" s.summary = "Bioinformatics library" s.description = "BioRuby is a library for bioinformatics (biology + information science)." s.platform = Gem::Platform::RUBY s.files = [ "COPYING", "COPYING.ja", "ChangeLog", "GPL", "KNOWN_ISSUES.rdoc", "LEGAL", "LGPL", "README.rdoc", "README_DEV.rdoc", "Rakefile", "bin/bioruby", "bin/br_biofetch.rb", "bin/br_bioflat.rb", "bin/br_biogetseq.rb", "bin/br_pmfetch.rb", "bioruby.gemspec", "bioruby.gemspec.erb", "doc/Changes-0.7.rd", "doc/Changes-1.3.rdoc", "doc/KEGG_API.rd", "doc/KEGG_API.rd.ja", "doc/Tutorial.rd", "doc/Tutorial.rd.html", "doc/Tutorial.rd.ja", "doc/Tutorial.rd.ja.html", "doc/bioruby.css", "etc/bioinformatics/seqdatabase.ini", "extconf.rb", 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"lib/bio/appl/paml/codeml.rb", "lib/bio/appl/paml/codeml/rates.rb", "lib/bio/appl/paml/codeml/report.rb", "lib/bio/appl/paml/common.rb", "lib/bio/appl/paml/common_report.rb", "lib/bio/appl/paml/yn00.rb", "lib/bio/appl/paml/yn00/report.rb", "lib/bio/appl/phylip/alignment.rb", "lib/bio/appl/phylip/distance_matrix.rb", "lib/bio/appl/probcons.rb", "lib/bio/appl/psort.rb", "lib/bio/appl/psort/report.rb", "lib/bio/appl/pts1.rb", "lib/bio/appl/sim4.rb", "lib/bio/appl/sim4/report.rb", "lib/bio/appl/sosui/report.rb", "lib/bio/appl/spidey/report.rb", "lib/bio/appl/targetp/report.rb", "lib/bio/appl/tcoffee.rb", "lib/bio/appl/tmhmm/report.rb", "lib/bio/command.rb", "lib/bio/compat/features.rb", "lib/bio/compat/references.rb", "lib/bio/data/aa.rb", "lib/bio/data/codontable.rb", "lib/bio/data/na.rb", "lib/bio/db.rb", "lib/bio/db/aaindex.rb", "lib/bio/db/biosql/biosql_to_biosequence.rb", "lib/bio/db/biosql/sequence.rb", "lib/bio/db/embl/common.rb", "lib/bio/db/embl/embl.rb", "lib/bio/db/embl/embl_to_biosequence.rb", "lib/bio/db/embl/format_embl.rb", "lib/bio/db/embl/sptr.rb", "lib/bio/db/embl/swissprot.rb", "lib/bio/db/embl/trembl.rb", "lib/bio/db/embl/uniprot.rb", "lib/bio/db/fantom.rb", "lib/bio/db/fasta.rb", "lib/bio/db/fasta/defline.rb", "lib/bio/db/fasta/fasta_to_biosequence.rb", "lib/bio/db/fasta/format_fasta.rb", "lib/bio/db/genbank/common.rb", "lib/bio/db/genbank/ddbj.rb", "lib/bio/db/genbank/format_genbank.rb", "lib/bio/db/genbank/genbank.rb", "lib/bio/db/genbank/genbank_to_biosequence.rb", "lib/bio/db/genbank/genpept.rb", "lib/bio/db/genbank/refseq.rb", "lib/bio/db/gff.rb", "lib/bio/db/go.rb", "lib/bio/db/kegg/brite.rb", "lib/bio/db/kegg/compound.rb", "lib/bio/db/kegg/drug.rb", "lib/bio/db/kegg/enzyme.rb", "lib/bio/db/kegg/expression.rb", "lib/bio/db/kegg/genes.rb", "lib/bio/db/kegg/genome.rb", "lib/bio/db/kegg/glycan.rb", "lib/bio/db/kegg/keggtab.rb", "lib/bio/db/kegg/kgml.rb", "lib/bio/db/kegg/orthology.rb", "lib/bio/db/kegg/reaction.rb", 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"test/unit/bio/appl/tmhmm/test_report.rb", "test/unit/bio/data/test_aa.rb", "test/unit/bio/data/test_codontable.rb", "test/unit/bio/data/test_na.rb", "test/unit/bio/db/biosql/tc_biosql.rb", "test/unit/bio/db/biosql/ts_suite_biosql.rb", "test/unit/bio/db/embl/test_common.rb", "test/unit/bio/db/embl/test_embl.rb", "test/unit/bio/db/embl/test_embl_rel89.rb", "test/unit/bio/db/embl/test_embl_to_bioseq.rb", "test/unit/bio/db/embl/test_sptr.rb", "test/unit/bio/db/embl/test_uniprot.rb", "test/unit/bio/db/kegg/test_genes.rb", "test/unit/bio/db/pdb/test_pdb.rb", "test/unit/bio/db/test_aaindex.rb", "test/unit/bio/db/test_fasta.rb", "test/unit/bio/db/test_gff.rb", "test/unit/bio/db/test_lasergene.rb", "test/unit/bio/db/test_medline.rb", "test/unit/bio/db/test_newick.rb", "test/unit/bio/db/test_nexus.rb", "test/unit/bio/db/test_prosite.rb", "test/unit/bio/db/test_rebase.rb", "test/unit/bio/db/test_soft.rb", "test/unit/bio/io/flatfile/test_autodetection.rb", "test/unit/bio/io/flatfile/test_buffer.rb", "test/unit/bio/io/flatfile/test_splitter.rb", "test/unit/bio/io/test_ddbjxml.rb", "test/unit/bio/io/test_ensembl.rb", "test/unit/bio/io/test_fastacmd.rb", "test/unit/bio/io/test_flatfile.rb", "test/unit/bio/io/test_soapwsdl.rb", "test/unit/bio/io/test_togows.rb", "test/unit/bio/sequence/test_aa.rb", "test/unit/bio/sequence/test_common.rb", "test/unit/bio/sequence/test_compat.rb", "test/unit/bio/sequence/test_dblink.rb", "test/unit/bio/sequence/test_na.rb", "test/unit/bio/shell/plugin/test_seq.rb", "test/unit/bio/test_alignment.rb", "test/unit/bio/test_command.rb", "test/unit/bio/test_db.rb", "test/unit/bio/test_feature.rb", "test/unit/bio/test_location.rb", "test/unit/bio/test_map.rb", "test/unit/bio/test_pathway.rb", "test/unit/bio/test_reference.rb", "test/unit/bio/test_sequence.rb", "test/unit/bio/test_shell.rb", "test/unit/bio/test_tree.rb", "test/unit/bio/util/restriction_enzyme/analysis/test_calculated_cuts.rb", "test/unit/bio/util/restriction_enzyme/analysis/test_cut_ranges.rb", "test/unit/bio/util/restriction_enzyme/analysis/test_sequence_range.rb", "test/unit/bio/util/restriction_enzyme/double_stranded/test_aligned_strands.rb", "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_location_pair.rb", "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_location_pair_in_enzyme_notation.rb", "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_locations.rb", "test/unit/bio/util/restriction_enzyme/double_stranded/test_cut_locations_in_enzyme_notation.rb", "test/unit/bio/util/restriction_enzyme/single_strand/test_cut_locations_in_enzyme_notation.rb", "test/unit/bio/util/restriction_enzyme/test_analysis.rb", "test/unit/bio/util/restriction_enzyme/test_cut_symbol.rb", "test/unit/bio/util/restriction_enzyme/test_double_stranded.rb", "test/unit/bio/util/restriction_enzyme/test_single_strand.rb", "test/unit/bio/util/restriction_enzyme/test_single_strand_complement.rb", "test/unit/bio/util/restriction_enzyme/test_string_formatting.rb", "test/unit/bio/util/test_color_scheme.rb", "test/unit/bio/util/test_contingency_table.rb", "test/unit/bio/util/test_restriction_enzyme.rb", "test/unit/bio/util/test_sirna.rb" ] s.has_rdoc = true s.extra_rdoc_files = [ "ChangeLog", "KNOWN_ISSUES.rdoc", "README.rdoc", "README_DEV.rdoc", "doc/Changes-1.3.rdoc" ] s.rdoc_options << '--main' << 'README.rdoc' s.rdoc_options << '--title' << 'BioRuby API documentation' s.rdoc_options << '--exclude' << '\.yaml\z' s.rdoc_options << '--line-numbers' << '--inline-source' s.require_path = 'lib' s.autorequire = 'bio' s.bindir = "bin" s.executables = [ "bioruby", "br_biofetch.rb", "br_bioflat.rb", "br_biogetseq.rb", "br_pmfetch.rb" ] s.default_executable = "bioruby" end