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2013-07-12	hyphaltip	bug #3440 - force case insensitive match for translation tag	commit \| commitdiff \| tree
2011-11-15	hyphaltip	Merge branch 'master' of github.com:bioperl/bioperl...	commit \| commitdiff \| tree
2011-11-15	hyphaltip	protect when n is too small for the calculation, still...	commit \| commitdiff \| tree
2011-06-22	hyphaltip	use SQLite instead of DB_File for storing the gi -...	commit \| commitdiff \| tree
2011-06-22	hyphaltip	skip lines starting with hash comment	commit \| commitdiff \| tree
2011-06-22	hyphaltip	warn only when debugging is on	commit \| commitdiff \| tree
2011-06-22	hyphaltip	compare evalue to the filter cutoff not to itsself	commit \| commitdiff \| tree
2011-05-26	hyphaltip	warn about the particular ID that doesn't exist	commit \| commitdiff \| tree
2011-05-24	hyphaltip	Merge branch 'master' of github.com:bioperl/bioperl...	commit \| commitdiff \| tree
2011-05-24	hyphaltip	cmdline example should have format for -sf option	commit \| commitdiff \| tree
2011-04-12	hyphaltip	small doc change	commit \| commitdiff \| tree
2011-04-12	hyphaltip	Merge branch 'master' of github.com:bioperl/bioperl...	commit \| commitdiff \| tree
2011-04-12	hyphaltip	revert throw statment that was preventing default STDOUT...	commit \| commitdiff \| tree
2011-03-27	hyphaltip	SSL is default for redmine connection	commit \| commitdiff \| tree
2011-03-27	hyphaltip	fix some formatting	commit \| commitdiff \| tree
2011-03-27	hyphaltip	support the SwissPfam indexer	commit \| commitdiff \| tree
2011-03-27	hyphaltip	minor formatting	commit \| commitdiff \| tree
2011-03-27	hyphaltip	bugzilla -> redmine URL modify	commit \| commitdiff \| tree
2011-03-14	hyphaltip	Merge branch 'master' of github.com:bioperl/bioperl...	commit \| commitdiff \| tree
2011-03-14	hyphaltip	bug reported by sebastien.theil@clermont.inra.fr -...	commit \| commitdiff \| tree
2010-12-28	hyphaltip	Merge branch 'master' of github.com:bioperl/bioperl...	commit \| commitdiff \| tree
2010-12-28	hyphaltip	missing comma in SYNPOSIS pdoc	commit \| commitdiff \| tree
2010-12-21	hyphaltip	use the proper method names - get_XXX instead of _each_XXX	commit \| commitdiff \| tree
2010-12-16	hyphaltip	when processing SSEARCH get the strand info from the...	commit \| commitdiff \| tree
2010-12-16	hyphaltip	match SSEARCH	commit \| commitdiff \| tree
2010-12-10	hyphaltip	bug #3160 - pcantalupo@gmail for writing the alg name...	commit \| commitdiff \| tree
2010-11-09	Jason Stajich	Merge branch 'topic/tree_dbsqlite_memoryfix' of github...	commit \| commitdiff \| tree
2010-11-09	Jason Stajich	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-11-09	Jason Stajich	change order for columns	commit \| commitdiff \| tree
2010-11-09	Jason Stajich	Merge remote branch 'upstream/master' into topic/tree_dbsqli...	commit \| commitdiff \| tree
2010-11-09	Jason Stajich	some helper methods implemented and the schema tweaked	commit \| commitdiff \| tree
2010-11-09	Jason Stajich	some stubs filled in	commit \| commitdiff \| tree
2010-11-09	Jason Stajich	commit some parts of the development - this has some...	commit \| commitdiff \| tree
2010-11-09	Jason Stajich	Merge remote branch 'upstream/master' into topic/tree_dbsqli...	commit \| commitdiff \| tree
2010-11-09	jason	empty	commit \| commitdiff \| tree
2010-11-09	Jason Stajich	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-11-08	jason	initial commit for Node skeleton	commit \| commitdiff \| tree
2010-11-08	jason	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-10-31	Jason Stajich	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-10-28	jason	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-10-20	jason	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-09-30	jason	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-09-13	jason	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-09-02	jason	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-07-27	jason	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-07-13	Jason Stajich	removed the leading typo	commit \| commitdiff \| tree
2010-07-13	Jason Stajich	fix POD	commit \| commitdiff \| tree
2010-07-13	Jason Stajich	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-07-08	Jason Stajich	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-07-05	Jason Stajich	Merge branch 'master' of git://github.com/bioperl/bioperl...	commit \| commitdiff \| tree
2010-06-19	Jason Stajich	Merge remote branch 'upstream/master'	commit \| commitdiff \| tree
2010-06-06	jason	Merge branch 'master' of git://github.com/bioperl/bioperl...	commit \| commitdiff \| tree
2010-06-06	Jason Stajich	Merge branch 'master' of git://github.com/bioperl/bioperl...	commit \| commitdiff \| tree
2010-05-25	jason	Merge branch 'master' of git://github.com/bioperl/bioperl...	commit \| commitdiff \| tree
2010-05-21	jason	Merge branch 'master' of git://github.com/bioperl/bioperl...	commit \| commitdiff \| tree
2010-05-20	jason	Merge branch 'master' of git://github.com/bioperl/bioperl...	commit \| commitdiff \| tree
2010-03-22	jason	bug #3032 - no whitespace between Gene: and number	commit \| commitdiff \| tree
2010-02-17	jason	rollback Florent's changes that defaulted Bio::PrimarySeq...	commit \| commitdiff \| tree
2010-02-17	jason	get the test count right	commit \| commitdiff \| tree
2010-01-22	jason	Can pass in -alphabet as init argument to Bio::AlignIO...	commit \| commitdiff \| tree
2010-01-22	jason	migrate alphabet method up to Bio::AlignIO parent....	commit \| commitdiff \| tree
2010-01-22	jason	add an alphabet init arg and get/setter	commit \| commitdiff \| tree
2009-05-18	jason	requires the specific Loader instance to be 'use'ed	commit \| commitdiff \| tree
2009-05-15	jason	gene and exon are the proper SO even for tRNAs. Insure...	commit \| commitdiff \| tree
2009-04-02	jason	MPI output slightly different	commit \| commitdiff \| tree
2009-03-01	jason	simplify LD code a bit, we don't need to keep a running...	commit \| commitdiff \| tree
2009-02-05	jason	deal with empty intersection	commit \| commitdiff \| tree
2009-02-05	jason	handle some divide by zero problems	commit \| commitdiff \| tree
2009-02-05	jason	somre more total stats	commit \| commitdiff \| tree
2009-02-05	jason	remove MYISAM directives	commit \| commitdiff \| tree
2009-02-04	jason	I guess remove this, it breaks some things, although...	commit \| commitdiff \| tree
2008-12-16	jason	skip test count updated for instances when SVG::Graph...	commit \| commitdiff \| tree
2008-12-16	jason	parse DBlinks now supported	commit \| commitdiff \| tree
2008-12-16	jason	indentation and formatting only	commit \| commitdiff \| tree
2008-12-14	jason	another example BLAST	commit \| commitdiff \| tree
2008-12-06	jason	demonstrate with a valid 'site_model' as 'codons' rather...	commit \| commitdiff \| tree
2008-12-02	jason	XML::DOM dependancy	commit \| commitdiff \| tree
2008-10-28	jason	jasonfail. add missing test data file for FASTA v35.04	commit \| commitdiff \| tree
2008-10-23	jason	support new method in API get_seq_by_id	commit \| commitdiff \| tree
2008-10-23	jason	FASTA - 35.04 Parameters section parsing for Matrix	commit \| commitdiff \| tree
2008-10-23	jason	FASTA - 35.04 Parameters section parsing for Matrix	commit \| commitdiff \| tree
2008-10-22	jason	Allow multi-ID indexing per sequence. This can be rolled...	commit \| commitdiff \| tree
2008-10-22	jason	more specific warning	commit \| commitdiff \| tree
2008-10-22	jason	fix email address	commit \| commitdiff \| tree
2008-10-22	jason	fix email address	commit \| commitdiff \| tree
2008-09-16	jason	match '*' and '?' as well	commit \| commitdiff \| tree
2008-08-17	jason	fully implement Bio::LocationI	commit \| commitdiff \| tree
2008-06-19	jason	AAML parsing was failing on runmode=0 data (usertree)	commit \| commitdiff \| tree
2008-06-18	jason	avoid undefined warnings when start/end are empty....	commit \| commitdiff \| tree
2008-06-14	jason	set the ID, typo	commit \| commitdiff \| tree
2008-06-14	jason	More GFF3 like output	commit \| commitdiff \| tree
2008-06-14	jason	simplify list of special ID tags and their preferred...	commit \| commitdiff \| tree
2008-06-13	jason	doc expansion	commit \| commitdiff \| tree
2008-06-12	jason	some whitespace cleanup	commit \| commitdiff \| tree
2008-06-12	jason	inherit from Bio::Root::RootI instead of NodeI	commit \| commitdiff \| tree
2008-05-11	jason	first crack at a sort_hsps option in a Hit object,...	commit \| commitdiff \| tree
2008-05-11	jason	code simplification	commit \| commitdiff \| tree
2008-05-11	jason	bug #2492, credit to K.Thornton's implementation	commit \| commitdiff \| tree
2008-05-11	jason	bug 2492	commit \| commitdiff \| tree
2008-04-22	jason	bug #2491	commit \| commitdiff \| tree
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