April 2007 Archives by date

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Starting: Mon Apr 2 08:55:28 EDT 2007
Ending: Mon Apr 23 16:05:36 EDT 2007
Messages: 113

• [BioRuby-cvs] bioruby ChangeLog,1.62,1.63   Naohisa Goto
• [BioRuby-cvs] bioruby/doc Changes-0.7.rd,1.18,1.19   Naohisa Goto
• [BioRuby-cvs] bioruby/lib/bio/appl mafft.rb,1.15,1.16   Naohisa Goto
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/range/sequence_range calculated_cuts.rb, 1.4, 1.5 fragment.rb, 1.2, 1.3 fragments.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/single_strand cut_locations_in_enzyme_notation.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/double_stranded aligned_strands.rb, 1.3, 1.4 cut_location_pair.rb, 1.5, 1.6 cut_location_pair_in_enzyme_notation.rb, 1.3, 1.4 cut_locations.rb, 1.3, 1.4 cut_locations_in_enzyme_notation.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/range cut_range.rb, 1.1, 1.2 cut_ranges.rb, 1.2, 1.3 horizontal_cut_range.rb, 1.2, 1.3 sequence_range.rb, 1.5, 1.6 vertical_cut_range.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme analysis.rb, 1.15, 1.16 analysis_basic.rb, 1.9, 1.10 double_stranded.rb, 1.8, 1.9 single_strand.rb, 1.3, 1.4 single_strand_complement.rb, 1.2, 1.3 string_formatting.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/single_strand cut_locations_in_enzyme_notation.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/double_stranded cut_location_pair.rb, 1.6, 1.7 cut_location_pair_in_enzyme_notation.rb, 1.4, 1.5 cut_locations_in_enzyme_notation.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme single_strand.rb, 1.4, 1.5 integer.rb, 1.2, NONE   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/util/restriction_enzyme test_integer.rb, 1.2, NONE   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme analysis_basic.rb, 1.10, 1.11   Trevor Wennblom
• [BioRuby-cvs] bioruby COPYING, 1.1.1.1, NONE COPYING.LIB, 1.1.1.1, NONE   Katayama Toshiaki
• [BioRuby-cvs] bioruby README,1.14,1.15 README.DEV,1.12,1.13   Katayama Toshiaki
• [BioRuby-cvs] bioruby/lib/bio/db/kegg ortholog.rb,1.7,1.8   Katayama Toshiaki
• [BioRuby-cvs] bioruby/lib/bio/db/kegg orthology.rb,1.8,1.9   Katayama Toshiaki
• [BioRuby-cvs] bioruby/lib bio.rb,1.82,1.83   Katayama Toshiaki
• [BioRuby-cvs] bioruby/test/unit/bio test_alignment.rb, 1.9, 1.10 test_feature.rb, 1.3, 1.4 test_location.rb, 1.2, 1.3 test_pathway.rb, 1.3, 1.4 test_sequence.rb, 1.6, 1.7   Mitsuteru C. Nakao
• [BioRuby-cvs] bioruby/sample goslim.rb,1.3,1.4   Mitsuteru C. Nakao
• [BioRuby-cvs] bioruby/sample psortplot_html.rb,1.1,1.2   Mitsuteru C. Nakao
• [BioRuby-cvs] bioruby/sample color_scheme_na.rb,1.1,1.2   Mitsuteru C. Nakao
• [BioRuby-cvs] bioruby/lib/bio/data na.rb,0.20,0.21   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio test_sequence.rb,1.7,1.8   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/data test_na.rb,1.7,1.8   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/sequence test_na.rb,1.3,1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/blat report.rb,1.12,1.13   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/clustalw report.rb,1.11,1.12   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/gcg msf.rb, 1.1, 1.2 seq.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/bl2seq report.rb,1.7,1.8   Trevor Wennblom
• [BioRuby-cvs] bioruby README.DEV,1.13,1.14   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib bio.rb,1.83,1.84   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl blast.rb, 1.32, 1.33 clustalw.rb, 1.17, 1.18 emboss.rb, 1.7, 1.8 fasta.rb, 1.23, 1.24 hmmer.rb, 1.8, 1.9 mafft.rb, 1.16, 1.17 psort.rb, 1.12, 1.13 pts1.rb, 1.4, 1.5 sim4.rb, 1.9, 1.10   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/blast format0.rb, 1.19, 1.20 format8.rb, 1.6, 1.7 report.rb, 1.10, 1.11 rexml.rb, 1.11, 1.12 wublast.rb, 1.8, 1.9 xmlparser.rb, 1.16, 1.17   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio alignment.rb, 1.21, 1.22 command.rb, 1.16, 1.17 db.rb, 0.36, 0.37 feature.rb, 1.12, 1.13 location.rb, 0.27, 0.28 pathway.rb, 1.35, 1.36 reference.rb, 1.23, 1.24 sequence.rb, 0.57, 0.58 tree.rb, 1.7, 1.8   Trevor Wennblom
• [BioRuby-cvs] bioruby/bin bioruby, 1.18, 1.19 br_biofetch.rb, 1.3, 1.4 br_bioflat.rb, 1.16, 1.17 br_biogetseq.rb, 1.3, 1.4 br_pmfetch.rb, 1.6, 1.7   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/sosui report.rb,1.10,1.11   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/db/embl common.rb, 1.11, 1.12 embl.rb, 1.28, 1.29 sptr.rb, 1.35, 1.36 swissprot.rb, 1.6, 1.7 trembl.rb, 1.6, 1.7 uniprot.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/sim4 report.rb,1.8,1.9   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/psort report.rb,1.14,1.15   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/tmhmm report.rb,1.7,1.8   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/mafft report.rb,1.11,1.12   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/data aa.rb, 0.19, 0.20 codontable.rb, 0.17, 0.18 na.rb, 0.21, 0.22   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/phylip alignment.rb, 1.1, 1.2 distance_matrix.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/db aaindex.rb, 1.19, 1.20 fantom.rb, 1.13, 1.14 fasta.rb, 1.27, 1.28 gff.rb, 1.7, 1.8 go.rb, 1.10, 1.11 lasergene.rb, 1.2, 1.3 litdb.rb, 0.9, 0.10 medline.rb, 1.15, 1.16 nbrf.rb, 1.9, 1.10 newick.rb, 1.6, 1.7 nexus.rb, 1.2, 1.3 pdb.rb, 1.7, 1.8 rebase.rb, 1.7, 1.8 soft.rb, 1.1, 1.2 transfac.rb, 1.11, 1.12   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/spidey report.rb,1.9,1.10   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/genscan report.rb,1.9,1.10   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/hmmer report.rb,1.12,1.13   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/iprscan report.rb,1.5,1.6   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/appl/targetp report.rb,1.8,1.9   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util color_scheme.rb, 1.3, 1.4 contingency_table.rb, 1.6, 1.7 restriction_enzyme.rb, 1.12, 1.13 sirna.rb, 1.10, 1.11   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/io das.rb, 1.15, 1.16 dbget.rb, 1.12, 1.13 ddbjxml.rb, 1.13, 1.14 ebisoap.rb, 1.2, 1.3 ensembl.rb, 1.10, 1.11 fastacmd.rb, 1.15, 1.16 fetch.rb, 1.9, 1.10 flatfile.rb, 1.57, 1.58 keggapi.rb, 1.13, 1.14 ncbisoap.rb, 1.2, 1.3 pubmed.rb, 1.15, 1.16 registry.rb, 1.18, 1.19 soapwsdl.rb, 1.6, 1.7 sql.rb, 1.7, 1.8   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/db/pdb atom.rb, 1.7, 1.8 chain.rb, 1.7, 1.8 chemicalcomponent.rb, 1.2, 1.3 model.rb, 1.8, 1.9 pdb.rb, 1.20, 1.21 residue.rb, 1.11, 1.12 utils.rb, 1.6, 1.7   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/io/flatfile bdb.rb, 1.9, 1.10 index.rb, 1.18, 1.19 indexer.rb, 1.24, 1.25   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/shell core.rb, 1.23, 1.24 demo.rb, 1.3, 1.4 interface.rb, 1.15, 1.16 irb.rb, 1.2, 1.3 object.rb, 1.2, 1.3 script.rb, 1.2, 1.3 setup.rb, 1.2, 1.3 web.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/sequence aa.rb, 1.3, 1.4 common.rb, 1.3, 1.4 compat.rb, 1.3, 1.4 format.rb, 1.3, 1.4 generic.rb, 1.4, 1.5 na.rb, 1.5, 1.6   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/shell/plugin blast.rb, 1.2, 1.3 codon.rb, 1.15, 1.16 das.rb, 1.2, 1.3 emboss.rb, 1.2, 1.3 entry.rb, 1.9, 1.10 keggapi.rb, 1.11, 1.12 midi.rb, 1.8, 1.9 psort.rb, 1.2, 1.3 seq.rb, 1.20, 1.21   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/db/genbank common.rb, 1.10, 1.11 ddbj.rb, 1.8, 1.9 genbank.rb, 0.39, 0.40 genpept.rb, 1.11, 1.12 refseq.rb, 1.7, 1.8   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/db/kegg brite.rb, 0.7, 0.8 compound.rb, 0.14, 0.15 drug.rb, 1.1, 1.2 enzyme.rb, 0.10, 0.11 expression.rb, 1.10, 1.11 genes.rb, 0.24, 0.25 genome.rb, 0.16, 0.17 glycan.rb, 1.4, 1.5 keggtab.rb, 1.9, 1.10 kgml.rb, 1.6, 1.7 reaction.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/range/sequence_range calculated_cuts.rb, 1.5, 1.6 fragment.rb, 1.3, 1.4 fragments.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/single_strand cut_locations_in_enzyme_notation.rb, 1.5, 1.6   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/functional/bio/io test_ensembl.rb, 1.3, 1.4 test_soapwsdl.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/range cut_range.rb, 1.2, 1.3 cut_ranges.rb, 1.3, 1.4 horizontal_cut_range.rb, 1.3, 1.4 sequence_range.rb, 1.6, 1.7 vertical_cut_range.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/sample color_scheme_na.rb, 1.2, 1.3 goslim.rb, 1.4, 1.5 psortplot_html.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/color_scheme buried.rb, 1.3, 1.4 helix.rb, 1.3, 1.4 hydropathy.rb, 1.3, 1.4 nucleotide.rb, 1.3, 1.4 strand.rb, 1.4, 1.5 taylor.rb, 1.3, 1.4 turn.rb, 1.3, 1.4 zappo.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme analysis.rb, 1.16, 1.17 analysis_basic.rb, 1.11, 1.12 cut_symbol.rb, 1.4, 1.5 double_stranded.rb, 1.9, 1.10 single_strand.rb, 1.5, 1.6 single_strand_complement.rb, 1.3, 1.4 string_formatting.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme/double_stranded aligned_strands.rb, 1.4, 1.5 cut_location_pair.rb, 1.7, 1.8 cut_location_pair_in_enzyme_notation.rb, 1.5, 1.6 cut_locations.rb, 1.4, 1.5 cut_locations_in_enzyme_notation.rb, 1.5, 1.6   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/db/pdb test_pdb.rb,1.2,1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/data test_aa.rb, 1.5, 1.6 test_codontable.rb, 1.5, 1.6 test_na.rb, 1.8, 1.9   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/appl/targetp test_report.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/appl/sosui test_report.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/appl/bl2seq test_report.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/appl/tmhmm test_report.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/appl test_blast.rb, 1.4, 1.5 test_fasta.rb, 1.2, 1.3 test_pts1.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio test_alignment.rb, 1.10, 1.11 test_command.rb, 1.4, 1.5 test_db.rb, 1.3, 1.4 test_feature.rb, 1.4, 1.5 test_location.rb, 1.3, 1.4 test_map.rb, 1.4, 1.5 test_pathway.rb, 1.4, 1.5 test_reference.rb, 1.2, 1.3 test_sequence.rb, 1.8, 1.9 test_shell.rb, 1.6, 1.7 test_tree.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/appl/hmmer test_report.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/db test_aaindex.rb, 1.3, 1.4 test_fasta.rb, 1.4, 1.5 test_gff.rb, 1.5, 1.6 test_lasergene.rb, 1.1, 1.2 test_newick.rb, 1.4, 1.5 test_nexus.rb, 1.1, 1.2 test_prosite.rb, 1.5, 1.6 test_rebase.rb, 1.4, 1.5 test_soft.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/db/kegg test_genes.rb,1.4,1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/db/embl test_common.rb, 1.3, 1.4 test_embl.rb, 1.4, 1.5 test_embl_rel89.rb, 1.1, 1.2 test_sptr.rb, 1.6, 1.7 test_uniprot.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/appl/genscan test_report.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/appl/blast test_report.rb, 1.4, 1.5 test_xmlparser.rb, 1.6, 1.7   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/shell/plugin test_seq.rb, 1.8, 1.9   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/util/restriction_enzyme/double_stranded test_aligned_strands.rb, 1.2, 1.3 test_cut_location_pair.rb, 1.2, 1.3 test_cut_location_pair_in_enzyme_notation.rb, 1.2, 1.3 test_cut_locations.rb, 1.2, 1.3 test_cut_locations_in_enzyme_notation.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/util/restriction_enzyme/single_strand test_cut_locations_in_enzyme_notation.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/sequence test_aa.rb, 1.2, 1.3 test_common.rb, 1.3, 1.4 test_compat.rb, 1.2, 1.3 test_na.rb, 1.4, 1.5   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/util/restriction_enzyme/analysis test_calculated_cuts.rb, 1.3, 1.4 test_cut_ranges.rb, 1.1, 1.2 test_sequence_range.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/util/restriction_enzyme test_analysis.rb, 1.9, 1.10 test_cut_symbol.rb, 1.1, 1.2 test_double_stranded.rb, 1.4, 1.5 test_single_strand.rb, 1.2, 1.3 test_single_strand_complement.rb, 1.2, 1.3 test_string_formatting.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/io test_ddbjxml.rb, 1.3, 1.4 test_ensembl.rb, 1.5, 1.6 test_fastacmd.rb, 1.2, 1.3 test_flatfile.rb, 1.1, 1.2 test_soapwsdl.rb, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/util test_color_scheme.rb, 1.2, 1.3 test_contingency_table.rb, 1.3, 1.4 test_restriction_enzyme.rb, 1.2, 1.3 test_sirna.rb, 1.3, 1.4   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/shell/plugin flatfile.rb, 1.12, 1.13 obda.rb, 1.9, 1.10   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio map.rb,1.9,1.10 shell.rb,1.18,1.19   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/data aa.rb, 0.20, 0.21 na.rb, 0.22, 0.23   Katayama Toshiaki
• [BioRuby-cvs] bioruby/lib/bio/data aa.rb,0.21,0.22   Katayama Toshiaki
• [BioRuby-cvs] bioruby/test/unit/bio/data test_aa.rb,1.6,1.7   Katayama Toshiaki
• [BioRuby-cvs] bioruby/lib/bio/appl/fasta format10.rb,1.6,1.7   Katayama Toshiaki
• [BioRuby-cvs] bioruby/lib/bio/appl/fasta format6.rb,1.2,NONE   Katayama Toshiaki
• [BioRuby-cvs] bioruby/lib/bio map.rb,1.10,1.11   Jan Aerts
• [BioRuby-cvs] bioruby/test/unit/bio test_map.rb,1.5,1.6   Jan Aerts
• [BioRuby-cvs] bioruby/lib/bio/io flatfile.rb,1.58,1.59   Katayama Toshiaki
• [BioRuby-cvs] bioruby/test/unit/bio/sequence test_aa.rb,1.3,1.4   Katayama Toshiaki
• [BioRuby-cvs] bioruby/lib/bio/db/pdb pdb.rb,1.21,1.22   Naohisa Goto
• [BioRuby-cvs] bioruby/lib/bio/appl/blast format0.rb, 1.20, 1.21 wublast.rb, 1.9, 1.10   Naohisa Goto
• [BioRuby-cvs] bioruby/lib/bio/appl/blast format0.rb, 1.21, 1.22 wublast.rb, 1.10, 1.11   Naohisa Goto
• [BioRuby-cvs] bioruby/doc Changes-0.7.rd,1.19,1.20   Naohisa Goto
• [BioRuby-cvs] bioruby/lib/bio/db/pdb residue.rb,1.12,1.13   Naohisa Goto
• [BioRuby-cvs] bioruby/doc Changes-0.7.rd,1.20,1.21   Naohisa Goto
• [BioRuby-cvs] bioruby/lib/bio/sequence na.rb,1.6,1.7   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme analysis_basic.rb, 1.12, 1.13   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme analysis_basic.rb, 1.13, 1.14   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme analysis.rb, 1.17, 1.18   Trevor Wennblom
• [BioRuby-cvs] bioruby/test/unit/bio/util/restriction_enzyme test_analysis.rb, 1.10, 1.11   Trevor Wennblom
• [BioRuby-cvs] bioruby/lib/bio/util/restriction_enzyme enzymes.yaml, 1.2, 1.3   Trevor Wennblom
• [BioRuby-cvs] bioruby README,1.15,1.16   Trevor Wennblom

Last message date: Mon Apr 23 16:05:36 EDT 2007
Archived on: Mon Apr 23 16:05:38 EDT 2007

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