From owner-comp-bio@hgmp.mrc.ac.uk Tue Sep 4 23:59:58 2001 Return-Path: Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 7376417BE6 for ; Tue, 4 Sep 2001 23:59:55 +0100 (BST) Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 5535017BDC for ; Tue, 4 Sep 2001 23:59:45 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6023) id 2374917BE5; Tue, 4 Sep 2001 23:58:33 +0100 (BST) Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id E654317A9B for ; Tue, 4 Sep 2001 14:20:26 +0100 (BST) Received: from chi6-1.relay.mail.uu.net (chi6-1.relay.mail.uu.net [199.171.54.98]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 3BC7917B24 for ; Tue, 4 Sep 2001 14:20:12 +0100 (BST) Received: from chiark.greenend.org.uk by chi6sosrv11.alter.net with ESMTP (peer crosschecked as: chiark.greenend.org.uk [195.224.76.132]) id QQlfaj29449 for ; Tue, 4 Sep 2001 13:20:10 GMT Received: from news by chiark.greenend.org.uk with local (Exim 3.12 #2) id 15eG7d-0002JG-00 (Debian); Tue, 04 Sep 2001 14:20:09 +0100 To: bionet-biology-computational@uunet.uu.net From: Tim Cutts Newsgroups: bionet.biology.computational Subject: Re: jalview on Linux Organization: Linux Unlimited Message-ID: References: X-Newsreader: trn 4.0-test70 (17 January 1999) Date: Tue, 4 Sep 2001 23:58:33 +0100 (BST) Sender: owner-comp-bio@hgmp.mrc.ac.uk Precedence: bulk In article , Daniel John Rigden wrote: >Hi > >I need to get a good multiple alignment editor working on my Linux >machine. I like Jalview but, as a novice, get tangled in the java >installation. > >Has anyone had success with Jalview on Linux? What's the secret?! Or, is >there a good alternative out there? Seaview seems to be the best of the >rest but lacks a lot of Jalview's features. Jalview worked beautifully for us here - we use Debian Linux, not Red Hat. I just installed the Debian java package (no configuration required other than the installation command) and then installed Jalview. Needed to edit Michele's wrapper csh script so that it uses our local SRS server, and to tell it where jalview.jar is, but that was all. I've had much more difficulty getting it to work on Solaris, and in fact now have the wrapper script transparently run it on one of the Linux boxes if someone tries to run it on a Sun! Tim. -- "It is the job of Sales and Marketing to insulate those who know what they're talking about from each other" -- I know who said this, but I'm not telling. .