Re: [Biojava-l] Re: Biojava-l digest, Vol 1 #287 - 5 msgs

2001-04-04 Thread Phillip Lord
You should just be able to use your .antrc file to specify the java command to use when launching ant. So for instance sticking the following into by .antrc should help. JAVACMD="java -Xms5000m -Xmx1m" Well at least on my machine it causes ant to crash as I haven't got 5

[Biojava-l] SAX Package

2001-04-04 Thread Wiepert, Mathieu
I have made some minor changes (I hope) to the sax package. I did this to add preliminary support for GCG blastn, and to make the BlastLikeSAXParser XSLT processor compliant. If I broke anything, I apologize mightily, and I am sure you will let me know. If anyone wants to test out the XSLT proc

[Biojava-l] Re: Biojava-l digest, Vol 1 #287 - 5 msgs

2001-04-04 Thread Michael L. Heuer
Jason Stajich wrote: > Can we pass in cmdline params to ant to specify a larger stack size? There is an additionalparam tag in the javadoc task; I assume there is the same thing in the javac task: michael ___ Biojava-l mailing list - [E

Re: [Biojava-l] SimpleAssembly.subList()

2001-04-04 Thread Thomas Down
On Wed, Apr 04, 2001 at 04:14:04PM +0100, Thomas Down wrote: > > I'm going to refactor SimpleAssembly (which is there mainly > as an example, really) to use AssembledSymbolList behind the > scenes (AssembledSymbolList in turn started out life as a cut > and paste of SimpleAssembly -- bad, bad, id

Re: [Biojava-l] SimpleAssembly.subList()

2001-04-04 Thread Thomas Down
On Wed, Apr 04, 2001 at 04:46:15PM +1200, Schreiber, Mark wrote: > 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 (Hi

Re: [Biojava-l] SimpleAssembly

2001-04-04 Thread Matthew Pocock
Oops. Schreiber, Mark wrote: > 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 adde