Tracking Git commits

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Core commits
RSS
Recent Commits to bioperl-live:master make explicit remove multi-declare variable warning maint: remove files that have been moved to a separate Bio-Coordinate distribution maint: update Changes after removing files from Bio-Root maint: remove files that have been moved to a separate Bio-Root distribution tests: move tests from Root to Assembly and SeqIO (fixing commit 527d74f9e9d39fe3590a65a69fc1e8c24cb94540) Bug 3415 maint: remove hard tabs and trailing whitespace Merge branch 'master' of github.com:bioperl/bioperl-live Add dna_to_aa_aln method and tests tests for inheritance should belong on the child class, not the parent class remove hard tabs and trailing whitespace from some test files Annotation: fix typo on test Merge branch 'master' of github.com:bioperl/bioperl-live Add support for version 4, all tests pass Bio::Cluster::SequenceFamily - bug fixes and performance doc: fix indentation, remove hard tabs and trailing whitespace missing request for marker name in the call recover GenericWebAgent from Bio-EUtilities split Bio-Biblio into a separate distribution

Run commits
RSS
Recent Commits to bioperl-run:master POD update More POD updates Test refresh POD updates and insignificant code changes Consistent indentation Fixed synopsis deleted extra log files Merge pull request #10 from bioperl/daisieh-adding_batchfile merging adding_batchfile Added version checking of Hyphy, updated create_wrapper based on version Merge pull request #8 from daisieh/bug_3381_2 Merge pull request #6 from daisieh/bug_3380 Better, cleaner warnings in tests. Fixes for bug 3381. Revert "Fixes for bug 3381" Fixes for bug 3381 Versioning added Rm Id lines Correct params and switches Correct params and switches

Ext commits
RSS
Recent Commits to bioperl-ext:master moved Bio::Tools::HMM and Bio::Ext::HMM into their own distro, got them compiling cleanly. tests not passing yet use UPPPER_TOL to catch the case when the expectation maximization step fixed Vitebi typo Fixed the typemap and also a memory bug in viterbi function in HMM.xs adding FEEDBACK:Support section to pod Bump to 1.007 (similar to trunk) ext patches (courtesy Thomas Jahns) get rid of some unended comment warnings from C compiler -fPIC needed for lib construction include errno definition removed DEBUG=1 IUPAC DNA support IUPAC DNA test case Add some helper code and tests to demo evalue oddities (bug 1857); casting issue? Add cast to correct pointer type (get rid of warnings) update version to last bioperl release bug 2329 bug 2074/2329 Removed Aaron's old test script (now in t/staden_read.t). Do we modify master ext makefile to account for this? bug 2074

Bioperl-DB (BioSQL)
RSS
Recent Commits to bioperl-db:master updates since last release update skipped files add MANIFEST.SKIP buzgilla -> redmine [RT 44466] remove corba-related scripts, now obsolete squash perl 5.12 warning ignore conf file add minimal .gitignore file weird duplication removed committing patch for bug #2958 test commit to check SVN::Notify Build.PL now checks for DBD drivers and attempts to DTRT remove MANIFEST.SKIP update Changes fix empty POD section some pod cleaning main trunk version is wrong * 02species.t now compared to similarly behaving instance, also creates comparable array [bug 2092] moved Bio into lib to make Module::Build installation more normal