Odd problem with native jdk.1.4.1 and jalview

[Bruno Afonso]

Hey,

I am having a strange problem that I would like to share with you since 
it appears to me to be a problem in the native jdk 1.4.1 :-)

The problem lies in a program to edit and view multiple alignments 
(biology stuff, you don't really need to know what this is ;)

Here's how to reproduce it:

create a script.sh
cheetah% cat script.sh
-------
#!/bin/sh
cd ~
mkdir testdir
cd testdir
# grab jalview's latest and greatest
wget http://www2.ebi.ac.uk/~michele/jalview/dist/source-1.7.5b.tgz
tar -zxvf source-1.7.5b.tgz
javac jalview/AlignFrame.java
# grab the alignment file. :-)
wget http://bio98.ist.utl.pt/~bruno/mfsmdr12.aln
java jalview.AlignFrame mfsmdr12.aln File CLUSTAL
/usr/local/linux-sun-jdk1.4.1/bin/java jalview.AlignFrame mfsmdr12.aln 
File CLUSTAL
-------

And now the problem:

The first time the app comes up, in the file dir, say to save postscript 
to local file.
Sometimes I can't even open a dialog box with "browse" and I have never 
ever been able to save the alignment. :-)

Now, this werks with java from linux jdk1.4.1... (the second time the 
app comes up).

Ideas? I'm out of them :)

-- 
Bruno Miguel Afonso
Biological Eng. student.
D.E.Q. @ I.S.T. - Portugal