[Biojava-l] Newbie Installation Question

2005-08-21 Thread Carl Manaster
Hi, I'm new to Java, new to biojava. I tried to install biojava, but instead of .jar files winding up in my Windows directory, I get .zip files. When I expand them, I get folders META-INF and org, which I suspect are really supposed to be in the .jar file. I tried renaming .zip to .jar, but Ecl

RE: [Biojava-l] Newbie Installation Question

2005-08-21 Thread Richard HOLLAND
You just have to download the jar files from http://www.biojava.org/download14.html . There's no such thing as 'installing' it really - just download the jar files, then make sure they're on your classpath (or set them up as a library in your IDE). If Internet Explorer is renaming or doing stuff b

RE: [Biojava-l] Newbie Installation Question

2005-08-21 Thread mark . schreiber
If you are using WinZip on windows the jar icon looks the same as a zip file. This is because winzip can read JAR files not because they are zip files. You never need to unzip a zip file (even if it is actually zipped). The source and docs files are zipped (usually .tar.gz) many modern IDEs don

Re: [Biojava-l] Newbie Installation Question

2005-08-21 Thread Carl Manaster
Thank you, Mark and Richard - Yes, it's IE, and I think it's renaming them as I download. I can force the new name to be .jar, and Eclipse is now happy. I think another problem was involved when I earlier tried renaming to .jar; too many things too new all at once. It's up and running now; tha

[Biojava-l] parse (recent) blast output

2005-08-21 Thread Dominique Vlieghe
Hello fellow biojova'ers I need, as every bioinformatician who uses java, a blast parser. I tried biojova's blastparser (from the cookbook), but recent blast outputs (2.2.10-11) are not supported. When I use the lazy method, I get a NullPointerException. So my questions are: 1) Has someone o