From owner-freebsd-java@FreeBSD.ORG Thu Jun 19 12:27:30 2003 Return-Path: Delivered-To: freebsd-java@freebsd.org Received: from mx1.FreeBSD.org (mx1.freebsd.org [216.136.204.125]) by hub.freebsd.org (Postfix) with ESMTP id 4EB5937B401 for ; Thu, 19 Jun 2003 12:27:30 -0700 (PDT) Received: from smtp.netcabo.pt (smtp.netcabo.pt [212.113.174.9]) by mx1.FreeBSD.org (Postfix) with ESMTP id 1D24943FBD for ; Thu, 19 Jun 2003 12:27:29 -0700 (PDT) (envelope-from brunomiguel@dequim.ist.utl.pt) Received: from dequim.ist.utl.pt ([213.22.82.115]) by smtp.netcabo.pt with Microsoft SMTPSVC(5.0.2195.5329); Thu, 19 Jun 2003 20:24:54 +0100 Message-ID: <3EF20EC3.20304@dequim.ist.utl.pt> Date: Thu, 19 Jun 2003 20:28:03 +0100 From: Bruno Afonso User-Agent: Mozilla/5.0 (X11; U; FreeBSD i386; en-US; rv:1.4b) Gecko/20030609 X-Accept-Language: pt, en, en-us MIME-Version: 1.0 To: freebsd-java@freebsd.org Content-Type: text/plain; charset=us-ascii; format=flowed Content-Transfer-Encoding: 7bit X-OriginalArrivalTime: 19 Jun 2003 19:24:54.0523 (UTC) FILETIME=[765CD4B0:01C33698] Subject: Odd problem with native jdk.1.4.1 and jalview X-BeenThere: freebsd-java@freebsd.org X-Mailman-Version: 2.1.1 Precedence: list List-Id: Porting Java to FreeBSD List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Thu, 19 Jun 2003 19:27:30 -0000 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