June 2010 Archives by subject

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Starting: Tue Jun 1 15:45:43 EDT 2010
Ending: Wed Jun 30 19:18:04 EDT 2010
Messages: 208

• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 0b77e5: get sequence parsing working   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 15f917: add bed fixes from live   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 1a3503: add interface tests for SF::Annotated   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 2ccc1a: merge two files over from the branch   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 379e2f: repo changed   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 4295cc: all tests now pass, but require core Bio::Root::Te...   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 4b4ea7: add test bed file   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 5758a7: get sequence parsing working   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 66ca49: get iterative feature groups working along with se...   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 6b1cf2: update manifest   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 720e8e: rm empty class and dir for the time being (cleanup...   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] 890c9d: Merge branch 'master' of git at github.com:bioperl/Bi...   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] a95133: add default .shipit file   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] dd9e93: fix gff tests (missing paren)   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] df7205: add SF::Annotated and tests   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] fe0ee5: init refactoring of FeatureIO, just a simple strea...   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] fe2ae0: tweaks to get network tests running, recursive tes...   noreply at github.com
• [Bioperl-guts-l] [bioperl/Bio-FeatureIO] fec78f: how about actually testing the features themselves...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-db] a98d2d: ignore conf file   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-db] e56b75: add minimal .gitignore file   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-hmmer3] 059feb: Bio::SearchIO::hmmer3: Fix parsing hmmscan results...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-hmmer3] 36f027: Fix detecting the hit table header line   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-hmmer3] 52c3bf: Fix parsing of the hit description   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-hmmer3] cf471c: Bio::SearchIO::hmmer3: rename (hit|hsp)info arrays...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-hmmer3] e581e9: Fix indentation of previous patch   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 01d967: added more intensive tests for longest-orf-finding...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 038a04: [bug 3014] passed values should be defined, defaul...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 04253f: add test for mem leak (may have to be modified)   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 04e36c: add documentation on code move   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 04f47a: [bug 3092] parse additional stats from text BLAST ...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 04fa25: allow condition where no tests are passed in (for ...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 04fa25: allow condition where no tests are passed in (for ...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 06e6bf: move sub creation to BEGIN, and document the _dclo...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 08154e: remove Bio::SF::Annotated and tests   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 091750: require, not use (I always screw that up)   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 0b38f9: speling mstake   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 0b508d: remove microarray-specific code into either bioper...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 0fe10c: [bug 3099] initial msout Seq parser, courtesy Warr...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 11c21f: move check for Leaktrace into BEGIN, then skip if ...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 132a6e: in-memory adaptor now produces a warning if the fa...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 1389c8: update MANIFEST   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 1687dc: Bio::Species delegates to Bio::Taxon and Bio::Tree...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 1ef6c2: added comment (not pod) block for internal _codon_...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 1ef6c2: added comment (not pod) block for internal _codon_...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 23590e: initial changeover to simple SF::Generic   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 24af44: protein molecule type not switched, correct bad te...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 2b1489: alias source_tag() to source()   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 33075e: Merge branch 'master' of git at github.com:bioperl/bi...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 368a23: [bug 3028] some rearrangement for FigTree output   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 3ba5f6: Bio::Assembly::Tools::ContigSpectrum:   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 4207d8: Gerp.t now passes   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 457ad8: clean up cleaning up (e.g. DESTROY properly)   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 4ac37b: Merge branch 'master' of github.com:bioperl/bioper...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 4b3399: add is_remote docs from Bio::LocationI to Atomic a...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 4ce636: added comment with the bases used in the codon tab...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 4cf778: remove dependencies   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 4e28fa: documentation typo; thanks to Peng Yu   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 4ea296: switch to Test::Weaken, optionally run   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 50e62b: added test requirement/skip for GD so no longer er...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 5cba9a: remove code refs for index tests, a few doc change...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 5cfc08: update MANIFEST   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 634b5d: fix error where, with protein seqs the division an...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 64ab09: test message   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 64ab09: test message   Chris Fields
• [Bioperl-guts-l] [bioperl/bioperl-live] 64ab09: test message   Kai Blin
• [Bioperl-guts-l] [bioperl/bioperl-live] 64ab09: test message   Chris Fields
• [Bioperl-guts-l] [bioperl/bioperl-live] 6789d5: Merge branch 'master' of github.com:bioperl/bioper...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 68ffe4: Removed temporary debugging code   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 69f542: expected answer off by two (frameshift   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 6c3004: Added new blast output file ZABJ4EA7014.CH878695.1...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 6c3004: Added new blast output file ZABJ4EA7014.CH878695.1...   Jay Hannah
• [Bioperl-guts-l] [bioperl/bioperl-live] 6c3004: Added new blast output file ZABJ4EA7014.CH878695.1...   Chris Fields
• [Bioperl-guts-l] [bioperl/bioperl-live] 6c3004: Added new blast output file ZABJ4EA7014.CH878695.1...   Jay Hannah
• [Bioperl-guts-l] [bioperl/bioperl-live] 6c3004: Added new blast output file ZABJ4EA7014.CH878695.1...   Chris Fields
• [Bioperl-guts-l] [bioperl/bioperl-live] 6e1103: Ben's changes to fix bug with file, along with com...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 6e2bc2: small doc fixes   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 6e2bc2: small doc fixes   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 6e2bc2: small doc fixes   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 6ea85d: updating test count for tests added in 48d9789   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 701a51: documentation typo; thanks to Peng Yu   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 71d9aa: added _seq_id method to many SeqFeature::Store dat...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 75ab71: Merge branch 'master' of github.com:bioperl/bioper...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 7723bb: uncomment remove_dir() to cleanup files   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 788a93: silence warnings with a default of 0   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 788a93: silence warnings with a default of 0   Kai Blin
• [Bioperl-guts-l] [bioperl/bioperl-live] 7a3652: move clone() method from TreeFunctionsI to Tree, a...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 7d4949: squash warning   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 8105a0: Bio/SeqIO/msout.pm 1.1.3   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 8105a0: Bio/SeqIO/msout.pm 1.1.3   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 83cf97: make this a real-world example   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 85bdf8: Updated 'Changes' file regarding assembly improvem...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 8ac5f4: fixed wrong interpretation of locations in bed fil...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 8bb3ad: Fixed typos in Bio::Assembly::Contig   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 96b9aa: remove two interface tests for SF::Annotated to Bi...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] 9ca1de: bit premature to check for this (API indicates thi...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] a68909: update bad test check   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] a6abc2: move seq offset calc into a separate method   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] a82f88: Merge branch 'master' into topic/update-1-6   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] abf0d5: make sure only defined values are passed on   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] b1f8cf: revert species to the prior version (all tests now...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] b4fb80: patch for Bug 3090, courtesy of Razi Khaja. New te...   Razi Khaja
• [Bioperl-guts-l] [bioperl/bioperl-live] b4fb80: patch for Bug 3090, courtesy of Razi Khaja. New te...   Dave Messina
• [Bioperl-guts-l] [bioperl/bioperl-live] b4fb80: patch for Bug 3090, courtesy of Razi Khaja. New te...   Razi Khaja
• [Bioperl-guts-l] [bioperl/bioperl-live] b4fb80: patch for Bug 3090, courtesy of Razi Khaja. New te...   Dave Messina
• [Bioperl-guts-l] [bioperl/bioperl-live] b4fb80: patch for Bug 3090, courtesy of Razi Khaja. New te...   Razi Khaja
• [Bioperl-guts-l] [bioperl/bioperl-live] b4fb80: patch for Bug 3090, courtesy of Razi Khaja. New te...   Dave Messina
• [Bioperl-guts-l] [bioperl/bioperl-live] b4fb80: patch for Bug 3090, courtesy of Razi Khaja. New te...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] b6f2b3: get_replaced_terms<- (courtesy Peng Yu)   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] b70aa6: yup, another documentation typo; again thanks to P...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] b7b20e: Reworked Bio::SeqIO::phd->next_seq so that it is m...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] b7bf0d: catch refs that sneak through, such as during thre...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] bc3b50: Typo correction   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] bcb335: small tweak to add for Args in docs   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] bff079: overhaul Root::clone to use either Clone, Storable...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] c1b897: Merge Brian's branch   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] c5cba4: Added Bio::Root::Root clone() (which uses Storable...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] c65976: Works great in Bio::DB::SeqFeature::Store::DBI::SQ...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] cea70e: Fixed bug with ambiguity comparisons in Bio/Align/...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] d1937b: updating MANIFEST to correspond to change in 6444b...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] de6316: [bug 3089] iteration and found_again added to Gene...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] e96a87: added routines to fetch all seqids   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] e9ce51: fix parsing of FASTA results; patch courtesy of Aa...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] ea368a: Added Bio::Root::Root clone() (which uses Storable...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] edcb76: fix lower-case issue with moltype   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] f1cea6: add ss-RNA to allowed moltypes   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] f1cea6: add ss-RNA to allowed moltypes   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] f4fc35: fix skip test number   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] f593ac: update MANIFEST   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] f7ad7a: added 'xref' identifier recognition for obo files....   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] f8123b: update MANIFEST   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-live] fbc8f9: remote database change (ensembl ID not present in ...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-microarray] 4c17d8: remove Makefile   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-microarray] ee0fc1: move Bio::Expression completely into bioperl-micro...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 09151b: bug 3091 - patch courtesy of Dimitar Kenanov   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 148ece: fix odd verbosity-dependent bug with EMBOSS tests   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 17270d: add ulimit -n check, as these tests fail from too ...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 50e6ed: align left   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 5d97c4: more robust call to ulimit   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 6d7b6d: is(), not ok()   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 75cddb: no_sequences -> num_sequences   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 8283ed: Merge branch 'master' of github.com:bioperl/bioper...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 85e3f0: add email   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 949e2a: add minimal gitignore   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] 9b9181: some tweaks to get rid of warnings   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] b46abd: skip if version greater than 1.2 (old primer3 code...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] b91617: Support for assembly variants in Bio::Tools::Run::...   noreply at github.com
• [Bioperl-guts-l] [bioperl/bioperl-run] d7fea4: Updated 'Changes' files for new assembly-related a...   noreply at github.com
• [Bioperl-guts-l] [Bug 2347] Bio::Tools::Run::Phylo::PAML::Baseml needs polishing and completion   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2463] bp_seqconvert.pl & Bio::SeqIO code cleanup and user friendly interface   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2463] bp_seqconvert.pl & Bio::SeqIO code cleanup and user friendly interface   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2483] request for implementation of write_assembly   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2673] original fields not inherited by seq objects in alignment slices   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2691] Bio::Microarray::Tools::ReseqChip depends on CPAN module Statistics::Frequency   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2744] Bio::LocatableSeq end.   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2758] assemblyIO - can't read phredPhrap ace file with tagged repeats   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2899] problem with t/LocalDB/SeqFeature.t when host ne localhost   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 2899] problem with t/LocalDB/SeqFeature.t when host ne localhost   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3017] use threads to get genbank file error   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3017] use threads to get genbank file error   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3017] use threads to get genbank file error   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3027] Bio::SearchIO crashes with PSI-BLAST "no hits found" after the first round   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3028] Bio::TreeIO::nexus Fails to correctly output FigTree Formatting tags   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3053] incorrect formatting of LOCUS line in genbank output   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3084] HSPI, frac_identical gives wrong results   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3089] HSPTableWriter cannot process Bio::Search::Hit::GenericHit objects   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3089] New: HSPTableWriter cannot process Bio::Search::Hit::GenericHit objects   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3090] New: Unable to case insensitivelyt parse 'Effective length of query', 'Effective length of database', 'Effective search space', and 'Effective search space used' from BLAST reports   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3090] Unable to case insensitively parse 'Effective length of query', 'Effective length of database', 'Effective search space', and 'Effective search space used' from BLAST reports   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3090] Unable to case insensitively parse 'Effective length of query', 'Effective length of database', 'Effective search space', and 'Effective search space used' from BLAST reports   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3090] Unable to case insensitively parse 'Effective length of query', 'Effective length of database', 'Effective search space', and 'Effective search space used' from BLAST reports   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3090] Unable to case insensitively parse 'Effective length of query', 'Effective length of database', 'Effective search space', and 'Effective search space used' from BLAST reports   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3091] blastplus cant recognize psiblast report   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3091] New: blastplus cant recognize psiblast report   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3092] New: Unable to parse 'Number of HSP's better than <e-value cuttoff> without gapping', 'Number of HSP's gapped', 'Number of HSP's successfully gapped' and 'Length adjustment' from BLAST reports   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3092] Unable to parse 'Number of HSP's better than <e-value cuttoff> without gapping', 'Number of HSP's gapped', 'Number of HSP's successfully gapped' and 'Length adjustment' from BLAST reports   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3092] Unable to parse 'Number of HSP's better than <e-value cuttoff> without gapping', 'Number of HSP's gapped', 'Number of HSP's successfully gapped' and 'Length adjustment' from BLAST reports   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3092] Unable to parse 'Number of HSP's better than <e-value cuttoff> without gapping', 'Number of HSP's gapped', 'Number of HSP's successfully gapped' and 'Length adjustment' from BLAST reports   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3093] New: perldoc Bio::Location::Simple to_FTstring() => to_FTstring   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3093] perldoc Bio::Location::Simple to_FTstring() => to_FTstring   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3094] Bio::Location::Simple valid_location missing   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3094] New: Bio::Location::Simple valid_location missing   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3095] New: seq_version() in Bio::PrimarySeq not found   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3095] seq_version() in Bio::PrimarySeq not found   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3095] seq_version() in Bio::PrimarySeq not found   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3097] New: -task blastn option is not available in Bio::Tools::Run::StandAloneBlastPlus   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3099] New SeqIO module to read ms output files from Hudson's ms   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3099] New SeqIO module to read ms output files from Hudson's ms   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3099] New SeqIO module to read ms output files from Hudson's ms   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3099] New: New SeqIO module to read ms output files from Hudson's ms   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3101] New SeqIO parser to read output created by Teshima and Innan's mbs   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3101] New SeqIO parser to read output created by Teshima and Innan's mbs   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3101] New: New SeqIO parser to read output created by Teshima and Innan's mbs   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3102] Error converting sff into fastaq   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3102] Error converting sff into fastaq   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3102] Error converting sff into fastaq   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3102] New: Error converting sff into fastaq   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3104] Bio::Species::classification() unhappy with single node "hierarchies"   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [Bug 3104] New: Bio::Species::classification() unhappy with single node "hierarchies"   bugzilla-daemon at portal.open-bio.org
• [Bioperl-guts-l] [GitHub] DaveMessina commented on a commit [bioperl/bioperl-live 06fe978]   GitHub
• [Bioperl-guts-l] [GitHub] DaveMessina commented on a commit [bioperl/bioperl-live df0fb23]   GitHub
• [Bioperl-guts-l] [GitHub] rkhaja sent you a pull request from rkhaja/bioperl-live   GitHub
• [Bioperl-guts-l] [GitHub] rkhaja sent you a pull request from rkhaja/bioperl-live   Jay Hannah
• [Bioperl-guts-l] [GitHub] viklund sent you a pull request from viklund/bioperl-live   GitHub
• [Bioperl-guts-l] bugzilla reminder emails now available   Dave Messina
• [Bioperl-guts-l] rfc: topic/longest_orf   Robert Buels
• [Bioperl-guts-l] rfc: topic/longest_orf   Dave Messina
• [Bioperl-guts-l] rfc: topic/longest_orf   Chris Fields
• [Bioperl-guts-l] rfc: topic/longest_orf   Dave Messina

Last message date: Wed Jun 30 19:18:04 EDT 2010
Archived on: Wed Jun 30 19:18:09 EDT 2010

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