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2018-09-16	Carnë Draug	maint: 644 permissions for almost all files	commit \| commitdiff \| tree
2018-09-16	Carnë Draug	maint: set all source code with utf-8 encoding	commit \| commitdiff \| tree
2018-09-16	Carnë Draug	maint: remove maintainer out of date files	commit \| commitdiff \| tree
2018-09-16	Carnë Draug	ide: remove module templates - no longer needed after...	commit \| commitdiff \| tree
2018-09-16	Carnë Draug	ide/bioperl-mode: into its own repository to be developed...	commit \| commitdiff \| tree
2018-09-16	Carnë Draug	maint: remove bioperl-mode release tarballs from version...	commit \| commitdiff \| tree
2018-09-15	Carnë Draug	Bio::Index::Abstract->_type_and_version: check type...	commit \| commitdiff \| tree
2018-09-15	Carnë Draug	t/LocalDB/Index/BlastTable.t: use tempdir to avoid...	commit \| commitdiff \| tree
2018-09-15	Carnë Draug	t/LocalDB/Index/Blast.t: create test tempfiles within...	commit \| commitdiff \| tree
2018-09-15	Carnë Draug	maint: remove unused test data files	commit \| commitdiff \| tree
2018-09-14	Carnë Draug	Remove AlignIO and Index stockholm modules to new Bio...	commit \| commitdiff \| tree
2018-09-14	Carnë Draug	Bio::DB::Universal: move into its own distribution	commit \| commitdiff \| tree
2018-09-14	Carnë Draug	maint: simplify README to cover simple install instructions.	commit \| commitdiff \| tree
2018-09-13	Carnë Draug	Bring base classes from BioPerl-run back to BioPerl.	commit \| commitdiff \| tree
2018-09-13	Carnë Draug	Remove use of Bio::Perl which has been moved to Bio...	commit \| commitdiff \| tree
2018-09-13	Carnë Draug	Bio::DB::MeSH move to its own distribution.	commit \| commitdiff \| tree
2018-09-13	Carnë Draug	Move HMMER related modules, tests, and programs to...	commit \| commitdiff \| tree
2018-09-13	Carnë Draug	Bio::DB::TFBS namespace has been moved to its own distributi...	commit \| commitdiff \| tree
2018-09-13	Carnë Draug	Bio::DB::HIV and related modules and scripts moved...	commit \| commitdiff \| tree
2018-09-12	Carnë Draug	Bio::Align::Graphics: move into its own distribution...	commit \| commitdiff \| tree
2018-09-12	Carnë Draug	Bio::Tools::Run::RemoteBlast: move into a new distribution...	commit \| commitdiff \| tree
2018-09-12	Carnë Draug	Bio::Perl: move its own distribution named Bio-Procedural	commit \| commitdiff \| tree
2018-09-12	Carnë Draug	Bio::MolEvol::CodonModel: move into it separate repo...	commit \| commitdiff \| tree
2018-09-12	Carnë Draug	Bio::SeqIO::entrezgene: move to existing Bio-ASN1-entrezgene...	commit \| commitdiff \| tree
2018-09-11	Carnë Draug	Bio/Restriction/*: move to another repo with same name.	commit \| commitdiff \| tree
2018-09-11	Carnë Draug	Bio/Tools/Gel.pm: move to another repo with same name.	commit \| commitdiff \| tree
2018-09-11	Carnë Draug	Bio/SeqEvolution/*: move to another repo with same...	commit \| commitdiff \| tree
2018-09-11	Carnë Draug	Bio/Structure/*: move to another repo with same name.	commit \| commitdiff \| tree
2018-09-11	Carnë Draug	t/data: remove more test data files which moved to...	commit \| commitdiff \| tree
2018-09-11	Carnë Draug	Bio/Assembly*: move to another repo with same name.	commit \| commitdiff \| tree
2018-09-11	Carnë Draug	Bio/PhyloNetwork*: move to another repo with same name.	commit \| commitdiff \| tree
2018-09-11	Carnë Draug	Bio/SeqIO/excel.pm: move to another repo with same...	commit \| commitdiff \| tree
2018-09-11	Carnë Draug	Bio/TreeIO/svggraph.pm: move to another repo with same...	commit \| commitdiff \| tree
2018-09-10	Carnë Draug	Bio/Tree/Draw/Cladogram.pm: move to another repo with...	commit \| commitdiff \| tree
2018-09-10	Carnë Draug	Bio/Draw/Pictogram.pm: move to another repo with same...	commit \| commitdiff \| tree
2018-09-10	Carnë Draug	Move all modules interfacing to ACeDB servers to a...	commit \| commitdiff \| tree
2018-09-10	Carnë Draug	Move all NeXML related modules and tests to a new Bio...	commit \| commitdiff \| tree
2018-09-10	Carnë Draug	Remove some unused test data files.	commit \| commitdiff \| tree
2018-09-10	Carnë Draug	Remove entire Bio::PopGen namespace and related modules...	commit \| commitdiff \| tree
2018-09-08	Carnë Draug	scripts/tree/bp_blast2tree.pl: moved to bioperl-run	commit \| commitdiff \| tree
2018-09-07	Carnë Draug	deobfuscator: remove this whole project	commit \| commitdiff \| tree
2018-09-04	Carnë Draug	Consistent shebang line to '+#!/usr/bin/perl'	commit \| commitdiff \| tree
2018-08-23	Carnë Draug	deobfuscator scripts: use warnings pragma instead of...	commit \| commitdiff \| tree
2018-07-25	Carnë Draug	Bio::MolEvol::CodonModel: fix documentation (issue...	commit \| commitdiff \| tree
2017-09-13	Carnë Draug	examples/align/clustalw.pl: remove file, now part of...	commit \| commitdiff \| tree
2017-09-08	Carnë Draug	Removal of Bio::Tools::Phylo::PAML.pm and related modules...	commit \| commitdiff \| tree
2017-08-31	Carnë Draug	Bio::PhyloNetwork::muVector: revert non-typo from 54c99cf411	commit \| commitdiff \| tree
2017-08-30	Carnë Draug	maint: fix multiple typos identified by lintian	commit \| commitdiff \| tree
2015-11-29	Carnë Draug	bp_pairwise_kaks.pl: do not mix space and tabs for...	commit \| commitdiff \| tree
2013-11-26	Carnë Draug	Bio::Align::Utilities - remove usage of /r option to...	commit \| commitdiff \| tree
2013-11-26	Carnë Draug	Fix nonsense in code comments.	commit \| commitdiff \| tree
2013-11-26	Carnë Draug	Bio::Align::Utilities - follow some perl best practices.	commit \| commitdiff \| tree
2013-11-26	Carnë Draug	Bio::Align::Utilities - new function most_common_sequences	commit \| commitdiff \| tree
2013-11-26	Carnë Draug	Bio::SimpleAlign - follow some perl best practices	commit \| commitdiff \| tree
2013-04-04	Carnë Draug	maint: remove files that have been moved to a separate...	commit \| commitdiff \| tree
2013-04-02	Carnë Draug	maint: update Changes after removing files from Bio...	commit \| commitdiff \| tree
2013-04-02	Carnë Draug	maint: remove files that have been moved to a separate...	commit \| commitdiff \| tree
2013-04-02	Carnë Draug	tests: move tests from Root to Assembly and SeqIO ...	commit \| commitdiff \| tree
2013-03-28	Carnë Draug	maint: remove hard tabs and trailing whitespace	commit \| commitdiff \| tree
2013-03-28	Carnë Draug	tests for inheritance should belong on the child class...	commit \| commitdiff \| tree
2013-03-28	Carnë Draug	remove hard tabs and trailing whitespace from some...	commit \| commitdiff \| tree
2013-03-28	Carnë Draug	Annotation: fix typo on test	commit \| commitdiff \| tree
2013-03-26	Carnë Draug	Bio::Cluster::SequenceFamily - bug fixes and performance	commit \| commitdiff \| tree
2013-03-26	Carnë Draug	doc: fix indentation, remove hard tabs and trailing...	commit \| commitdiff \| tree
2013-03-21	Carnë Draug	recover GenericWebAgent from Bio-EUtilities	commit \| commitdiff \| tree
2013-03-13	Carnë Draug	split Bio-Biblio into a separate distribution	commit \| commitdiff \| tree
2013-03-12	Carnë Draug	Merge pull request #53 from bvaisvil/master	commit \| commitdiff \| tree
2013-03-06	Carnë Draug	Bio::Perl - fix indentation (remove tabs, and weird...	commit \| commitdiff \| tree
2013-03-04	Carnë Draug	Don't use a separate default scalar when there's a...	commit \| commitdiff \| tree
2013-03-04	Carnë Draug	follow perl recommendations:	commit \| commitdiff \| tree
2013-03-04	Carnë Draug	fix indentation (remove tabs, and weird 3 spaces indentation)	commit \| commitdiff \| tree
2013-03-04	Carnë Draug	follow perl recommendations:	commit \| commitdiff \| tree
2013-03-04	Carnë Draug	use until instead of while(1){last if...}	commit \| commitdiff \| tree
2013-03-04	Carnë Draug	fix indentation (remove tabs, 3 space and 2 space indentation)	commit \| commitdiff \| tree
2013-02-11	Carnë Draug	removing Bio::FeatureIO and Bio::SeqFeature::Annotated...	commit \| commitdiff \| tree
2013-02-06	Carnë Draug	maint: mention recent changes to Bio::SeqIO::fasta	commit \| commitdiff \| tree
2013-02-06	Carnë Draug	Bio::SeqIO::fasta - remove package variables for defaults	commit \| commitdiff \| tree
2013-02-05	Carnë Draug	Bio::SeqIO::fasta - implement block method for pretty...	commit \| commitdiff \| tree
2013-02-05	Carnë Draug	follow perl recommendations:	commit \| commitdiff \| tree
2013-01-28	Carnë Draug	finish moving the Bio-DB-EUtilities to the Bio-EUtilities...	commit \| commitdiff \| tree
2013-01-28	Carnë Draug	Fixing POD documentation. Empty line before =cut to...	commit \| commitdiff \| tree
2011-09-28	Carnë Draug	genbank_ref_extractor: move 'require's to GetOptions...	commit \| commitdiff \| tree
2011-09-28	Carnë Draug	genbank_ref_extractor: changed default assembly regex	commit \| commitdiff \| tree
2011-09-28	Carnë Draug	genbank_ref_extractor: small typo on documentation	commit \| commitdiff \| tree
2011-09-28	Carnë Draug	genbank_ref_extractor: added assembly to exported data	commit \| commitdiff \| tree
2011-09-22	Carnë Draug	genbank_ref_extractor: typo on all instances of var...	commit \| commitdiff \| tree
2011-09-22	Carnë Draug	genbank_ref_extractor: small fixes on POD documentation	commit \| commitdiff \| tree
2011-09-21	Carnë Draug	genbank_ref_extractor: new script to make search on...	commit \| commitdiff \| tree
2011-07-25	Carnë Draug	Fix bug when using STDOUT or writing to file without...	commit \| commitdiff \| tree
2011-07-25	Carnë Draug	Improvements to POD	commit \| commitdiff \| tree
2011-07-25	Carnë Draug	replaced identation tabs for spaces	commit \| commitdiff \| tree
2011-07-25	Carnë Draug	Don't mess with $^W. Control with warnings pragma instead	commit \| commitdiff \| tree
2011-07-25	Carnë Draug	scripts: added 'use warnings' to all scripts without it	commit \| commitdiff \| tree
2011-07-25	Carnë Draug	scripts: replaced -w switch by use warnings	commit \| commitdiff \| tree
2011-07-20	Carnë Draug	Script documentation fix to match their names with...	commit \| commitdiff \| tree
2011-07-19	Carnë Draug	Renamed all scripts with prfix bp_	commit \| commitdiff \| tree

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