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Created with Raphaël 2.2.028Aug272625242019181714131211106329Jul272423222120171615137632130Jun292625242322191816121095432129May272615141312876530Apr2927242322212017161498763131Mar272625242320191817161365427Feb26252423191817161210976543227Jan2322201915141398716Dec1511109432128Nov2726252421201917161413121110765331Oct3028242322201817161514131098762130Sep2524232219181615121110843220Aug1918151413121187654131Jullook for orthologs made from feature_relationship connections with no match featurejam updatesupdateupdateupdateignore obsolete features when exporting from the databaseadd alignment viewermodified to use UItidied upreplaced stars with spaces in password entrymade less verbose on the consolefixed so that all command line parameters are read in when in console mode, and fixed the situation where a database was given as part of the url in console mode, but ignored because no user was also givenfixed a type in the main parameter help listingA helper class to hide password fields for the UI.Modified to work with JDK 5updatefix for finding duplicate qualifierscheck if the product is already in the database and add /gene to the gene and polypeptideshow definition for riley class as a tooltip.synchronise the polypeptide and exon coloursincrease number of shades for heat mapin database mode set a qualifier on the polypeptide as well as CDS featuredispose of entry after reading and writingfix for features with phases in the gene builder, so that navigating does not produces errors about codon_startallow other systematic_name_qualifiers to be transferred when using Fix Gene Namesfix for pipe separated dbxrefs in GOmake ibatis the default database access methodfix for writing out translation qualifier for polypeptide featuresremoved print stack tracecomment out UI.warm()fix for null uimodeorg.gmod.schemaremoved annoying pop upsadded translation qualifiermodified to match UI.booleanUserInput's new signaturechanged booleanUserInput signaturechanged to make use of the new io.UI classthe new UI classchanged writedb_entry to work on the utilise the UI classadded translation for polypeptide features (with Tim's help!)