April 2009 Archives by subject

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Starting: Wed Apr 1 13:25:19 EDT 2009
Ending: Tue Apr 28 11:59:46 EDT 2009
Messages: 65

• [Bioperl-guts-l] [15621] bioperl-live/trunk/Bio/LocatableSeq.pm:   George Hartzell
• [Bioperl-guts-l] [15622] bioperl-live/trunk/Bio/SimpleAlign.pm: uniq_seq: removed commented print STDERR lines   Mark Allen Jensen
• [Bioperl-guts-l] [15623] bioperl-live/trunk/scripts/searchio/fastam9_to_table.PLS: MPI output slightly different   Jason Stajich
• [Bioperl-guts-l] [15624] bioperl-live/trunk: fixed round-tripping of gff3 format when a feature has multiple parentage.   Lincoln Stein
• [Bioperl-guts-l] [15625] bioperl-live/trunk/Bio: backed out changes to primary_id that broke seqfeature::store   Lincoln Stein
• [Bioperl-guts-l] [15626] bioperl-live/trunk/Bio/Search/HSP/HSPI.pm: typo   Christopher John Fields
• [Bioperl-guts-l] [15627] bioperl-live/trunk/Bio/AnnotatableI.pm: remove unnecessary use statements   Christopher John Fields
• [Bioperl-guts-l] [15628] bioperl-live/trunk: fix for mail list location bug along with a test   Christopher John Fields
• [Bioperl-guts-l] [15629] bioperl-dev/trunk/Bio/DB/HIV/HIVXmlSchema.pm: pod mod   Mark Allen Jensen
• [Bioperl-guts-l] [15630] bioperl-dev/trunk/Bio/DB/HIV/HIVXmlSchema.pm: keyword subst   Mark Allen Jensen
• [Bioperl-guts-l] [15631] bioperl-live/trunk/Bio/SimpleAlign.pm: per Tristan' s patch Bug #2805: in array context,   Mark Allen Jensen
• [Bioperl-guts-l] [15632] bioperl-live/trunk/Bio/DB: fix for broken types() method   Lincoln Stein
• [Bioperl-guts-l] [15633] bioperl-dev/trunk/Bio/DB/HIV/HIVXmlSchema.pm: add code to locate . xsd files   Mark Allen Jensen
• [Bioperl-guts-l] [15634] bioperl-dev/trunk/Bio/DB/HIV/HIVXmlSchema.pm: changed pod: Bio:: Phylo best repository link   Mark Allen Jensen
• [Bioperl-guts-l] [15636] bioperl-live/trunk/Bio/SimpleAlign.pm: [bug 2801]   Christopher John Fields
• [Bioperl-guts-l] [15637] bioperl-live/trunk: [bug 2810]   Christopher John Fields
• [Bioperl-guts-l] [15638] bioperl-live/trunk/Bio/Matrix/IO/phylip.pm: [bug 2800]   Christopher John Fields
• [Bioperl-guts-l] [15639] bioperl-live/trunk/Bio/Root/Utilities.pm: [bug 2737]   Christopher John Fields
• [Bioperl-guts-l] [15640] bioperl-live/trunk: [bug RT 44536]   Christopher John Fields
• [Bioperl-guts-l] [15641] bioperl-live/trunk/Bio/SearchIO/Writer/GbrowseGFF.pm: [bug RT 44782 ]   Christopher John Fields
• [Bioperl-guts-l] [15642] bioperl-live/trunk/Bio/DB/SeqFeature/Store/FeatureFileLoader.pm: [ bug RT 44535]   Christopher John Fields
• [Bioperl-guts-l] [15643] bioperl-live/trunk: [bug 2575]   Christopher John Fields
• [Bioperl-guts-l] [15644] bioperl-live/trunk/Bio/Search/SearchUtils.pm: [bug RT 36480]   Christopher John Fields
• [Bioperl-guts-l] [15645] bioperl-live/trunk/Bio/DB/SwissProt.pm: [bug 2764]   Christopher John Fields
• [Bioperl-guts-l] [15646] bioperl-live/trunk/Bio/Microarray/Tools/ReseqChip.pm: Documentation , Bugfixes, Minor Changes   Marian Thieme
• [Bioperl-guts-l] [15647] bioperl-live/trunk/Bio/Microarray/Tools/MitoChipV2Parser.pm: Documentation, Bugfixes, Minor Changes   Marian Thieme
• [Bioperl-guts-l] [15648] bioperl-live/trunk/t/Microarray/Tools/ReseqChip.t: Test routine fixed   Marian Thieme
• [Bioperl-guts-l] [15649] bioperl-live/trunk/t/RemoteDB: * split up and clean DB.t tests ( easier to debug)   Christopher John Fields
• [Bioperl-guts-l] [15650] bioperl-live/trunk/t/RemoteDB/GenBank.t: remove extraneous text   Christopher John Fields
• [Bioperl-guts-l] [15651] bioperl-live/trunk/t/data/ReseqChip_ParamsNcall.csv: CSV files with Parameters covering different levels of ncalls   Marian Thieme
• [Bioperl-guts-l] [15652] bioperl-live/trunk/t/Microarray/Tools/ReseqChip.t: bug fixes   Marian Thieme
• [Bioperl-guts-l] [15653] bioperl-live/trunk/Bio/Microarray/Tools/ReseqChip.pm: bug fixes   Marian Thieme
• [Bioperl-guts-l] [15654] bioperl-live/trunk/Bio/Microarray/Tools/ReseqChip.pm: remove comments   Marian Thieme
• [Bioperl-guts-l] [15655] bioperl-live/trunk/Bio/SeqIO/entrezgene.pm: perltidy   Christopher John Fields
• [Bioperl-guts-l] [15656] bioperl-run/trunk/Bio/Tools/Run/Alignment/Exonerate.pm: tested under exonerate 2.2   Heikki Lehvaslaiho
• [Bioperl-guts-l] [15657] bioperl-live/trunk: added methods to extract regions based on quality threshold value.   Heikki Lehvaslaiho
• [Bioperl-guts-l] [15658] bioperl-live/trunk/Bio/Tree/Statistics.pm: fix illegal division by zero.   Heikki Lehvaslaiho
• [Bioperl-guts-l] [15659] bioperl-live/trunk/Bio/Microarray/Tools/MitoChipV2Parser.pm: fix authors email address   Marian Thieme
• [Bioperl-guts-l] [Bug 2498] Add HSP sorting to Bio::Search::Hit   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2505] Add in a sort feature for SeqFeatureI get_all_tags()   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2514] Run tests with binaries installed   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2575] Easy request - a frac_identical_total column in HSPTableWriter.pm?   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2575] Easy request - a frac_identical_total column in HSPTableWriter.pm?   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2668] bioperl-ext fails to compile on x86_64   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2735] bp_load_gff.pl will not shut up   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2737] t/Root/Utilities test is fooled by softlinks to /usr/bin/gunzip   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2739] using nonstandard characters in protein alignment results in residue count warning   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2753] Unknown format of PAML output did not see seqtype in Yn00   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2753] Unknown format of PAML output did not see seqtype in Yn00   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2764] enhance SwissProt retreival by id using IDTracker   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2764] enhance SwissProt retreival by id using IDTracker   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2766] SeqUtils not copying SeqFeature tags   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2800] Bio::Matrix::IO::phylip warn "The number of entries N is not the same 0" when parsing multiple data sets   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2801] SimpleAlig remove_columns   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2805] Bio::SimpleAlign, uniq_seq, and ST composition   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2805] Bio::SimpleAlign, uniq_seq, and ST composition   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2805] New: Bio::SimpleAlign, uniq_seq, and ST composition   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2810] New: SeqUtils not copying SeqFeature tags - part 2 - revcom this time   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2810] SeqUtils not copying SeqFeature tags - part 2 - revcom this time   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2810] SeqUtils not copying SeqFeature tags - part 2 - revcom this time   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2810] SeqUtils not copying SeqFeature tags - part 2 - revcom this time   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2813] New: AlignIO returns undef when last sequence has zero end   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2816] Bio::SeqIO::entrezgene no longer contains Features   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2816] Bio::SeqIO::entrezgene no longer contains Features   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2816] New: Bio::SeqIO::entrezgene no longer contains Features   bugzilla-daemon at portal.open-bio.org

Last message date: Tue Apr 28 11:59:46 EDT 2009
Archived on: Tue Apr 28 11:59:49 EDT 2009

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