Hi...
Just been looking at the ComponentFeature code, and I've noticed an interesting quirk. Normally, reverse-strand features have a getSymbols() method which returns the reverse-complement of the symbols which are covered by that feature (so far so good...). However, out implementations of ComponentFeature don't do this -- they all return forward- strand symbols. The reason this has been hidden for so long is that there's a compensating bug in AssembledSymbolList, so the assemblies still work out properly! I'd like to fix this this afternoon (and yes, I'll check in fixes for both the bug and the counter-bug at the same time :-). This shouldn't affect anyone unless you've written a custom implementation of ComponentFeature, in which case you might have to update getSymbols(). At the same time, I'll be adding an extra method, getComponentSequenceName(), which will be useful in DAS-type environements. Is this going to cause trouble for anyone? Thomas. _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
