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2018-09-30	Carnë Draug	Remove manipulation of @INC and use of lib - require...	commit \| commitdiff \| tree
2018-09-30	Carnë Draug	dist.ini: make Win32 a dependency for Windows only...	commit \| commitdiff \| tree
2018-09-29	Carnë Draug	Bio::SeqIO::agave: move to its own distribution	commit \| commitdiff \| tree
2018-09-29	Carnë Draug	Bio::SeqIO::chadoxml (and flybase_chadoxml): move to...	commit \| commitdiff \| tree
2018-09-29	Carnë Draug	maint: list Data::Stag::XMLWriter as dropped dependency	commit \| commitdiff \| tree
2018-09-29	Carnë Draug	Bio::SeqIO::chaosxml (and chaos): move to their own...	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::SeqIO::strider: move into its own distribution	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::Tools::Protparam: move to its own distribution	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	maint: update and clean removed modules and dependencies...	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::DB::SeqVersion: move into its own distribution	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::Tools::SiRNA and related moved to separate distribution	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::Tools::Analysis::Protein: move modules into their...	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::Tools::Analysis::Protein::Scansite: move to separate...	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::Tools::Analysis::Protein:ELM: move to separate...	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::Tools::Analysis::DNA::ESEfinder: move to separate...	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::DB::RefSeq, Bio::DB::EMBL, and subclasses of Bio...	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	Bio::Taxonomy: move deprecated namespace to its own...	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	lib/BioPerl.pm: convert line-ending dos2unix	commit \| commitdiff \| tree
2018-09-28	Carnë Draug	doc: update HACKING instructions with dzil instructions	commit \| commitdiff \| tree
2018-09-25	Carnë Draug	t/*: remove "use lib '.'" and t/lib/Error.pm	commit \| commitdiff \| tree
2018-09-25	Carnë Draug	Bio::DB::CUTG: move into its own distribution	commit \| commitdiff \| tree
2018-09-25	Carnë Draug	Bio::DB::Taxonomy::sqlite: move into its own distribution	commit \| commitdiff \| tree
2018-09-25	Carnë Draug	Bio::DB::GFF move into its own namespace (except Bio...	commit \| commitdiff \| tree
2018-09-25	Carnë Draug	Bio::DB::SeqFeature::* move namespace into its own...	commit \| commitdiff \| tree
2018-09-25	Carnë Draug	maint: update changes from 1f7b54a281a8	commit \| commitdiff \| tree
2018-09-25	Carnë Draug	Bio::Variation::* move namespace into its own distribution.	commit \| commitdiff \| tree
2018-09-24	Carnë Draug	Remove Bio::SeqIO support for abi, alf, ctf, exp, pln...	commit \| commitdiff \| tree
2018-09-24	Carnë Draug	Bio::Cluster and Bio::ClusterIO moved to their own...	commit \| commitdiff \| tree
2018-09-22	Carnë Draug	Bio::Phenotype::* move what's left of the namespace...	commit \| commitdiff \| tree
2018-09-22	Carnë Draug	maint: remove no longer used test data files.	commit \| commitdiff \| tree
2018-09-22	Carnë Draug	Bio::LiveSeq::* move whole namespace to its own distribution.	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	maint: update gitignore rules	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	maint: restructure to use Dist::Zilla	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	t/AlignIO/AlignIO.t: fix number of tests in plan (fixup...	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	t/Annotation/Annotation.t: remove test for Bio::SeqFeature...	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	Bio/Tools/Run/Phylo/PhyloBase.pm: bring base class...	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	Bio/Tools/Phylo/Gumby.pm: move to its own distribution	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	DB/SeqFeature/Store/berkeleydb3.pm: fix errors so it...	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	Adjust tests indirectly making use of Bio::AlignIO...	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	bp_process_wormbase: move program to new Bio-DB-Ace...	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	bp_netinstall: remove out of date program	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	Move modules dependent on Bio::Ext::Align into defunct...	commit \| commitdiff \| tree
2018-09-17	Carnë Draug	Bio::DB::Expression: move to defunct bioperl-microarray	commit \| commitdiff \| tree
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
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