POD doc clarification
Sanity checks in store()
POD clarifications
POD typo fix
Added test cases for add_SeqFeature and fetch_SeqFeatures
fix for bad condition check, via Elia Stupka
add tests and a few other fixes to account for cut matches at beginning
Minor clarifications
Changed fetch_seqfeatures() so that it uses direct lookup instead of grep()
Added test cases for adding and retrieving subfeatures
Little fix for fetch_SeqFeature and more tests
Little fix for fetch_SeqFeature and more tests
Migrated SeqFeatures in assemblies to Bio::DB::SeqFeature::Store::memory
This finishes the migration of all Bio::Assembly code to Bio::DB::SeqFeature::Store facility!
As a consequence, assembly-related operations are much faster, have a computation time proportional to the number of reads in contigs (instead of exponential), and are thus more adapted to process high-throughput assemblies
Merge branch 'assembly_seqfeature_store'
Merge branch 'master' of github.com:bioperl/bioperl-live
localize $_ if you are going to modify it in a lib function
bugfix to Bio::Tools::RepeatMasker, reverse matches were wrong
Worked around changes in memory adapter without abolishing the features
that Florent added to the memory adapter. Please revisit the decision to
allow arbitrary primary_ids in features that can be stored to the database.
improved performance of SQLite and mysql adaptors when loading many DNA sequences; fixed berkeleydb3 adaptor to return correct result from get_features_by_type() when called with a primary_tag and no source
fixed up berkeleydb adaptor to pass new set of regression tests
not using subversion
test redmine