[Biojava-l] SimpleAssembly.subList()

2001-04-03 Thread Schreiber, Mark
Hi - There may be a problem with the subList method of SimpleAssembly. Seems to give ArrayIndexOutOfBoundsExceptions. I will look into this tommorrow unless someone else can attain fame and glory by finding it first (Hint Hint ;-) ) Mark ___ Biojava-l

[Biojava-l] SimpleAssembly

2001-04-03 Thread Schreiber, Mark
Hi - I have noticed that SimpleAssembly does not contain an Annotation asscoiated with the pointer annotation which causes NullPointerExceptions. I have added this.annotation = Annotation.EMPTY_ANNOTATION; to each of the constructors and added a new constructor: SimpleAssembly(

[Biojava-l] nightly builds, openbsd, ant

2001-04-03 Thread Jason Stajich
Thomas - I'm trying to do a build on cvs.bioperl.org. We're running openbsd 2.8, but I've installed linux compat and blackdown 1.2. When I do ant I get compile: [javac] Compiling 430 source files to /home/jason/biojava/biojava-live/ant-build/classes [javac] The compiler has run out of me

[Biojava-l] BSANE

2001-04-03 Thread Juha Muilu
I am happy to announce that EBI and NetGenics have submitted response against the Biomolecular Sequence Analysis Entities (BSANE) RFP. The joint submission is now available at http://www.omg.org/cgi-bin/doc?lifesci/2001-03-04 Please have a look! A goal of the response is to start to merge the