Hi -
The missing JAR file is the jakarta regular expression library (required in biojava1.3
not required in biojava-live). You can get it from the biojava download page.
- Mark
-Original Message-
From: allanlee [mailto:[EMAIL PROTECTED]
Sent: Tue 7/10/2003
Hi, Good day!
I got a "NoClassDefFound" exception when I call:
db = SeqIOTools.readFasta(is,alpha);
-excert from my
code--
import java.io.*;
import java.util.*;
import org.biojava.bio.*;
import o
Hi -
I am not getting the exception you have below (which looks like one from before we
fixed the EmblFileFormer). I am however getting an InvalidObjectException which is
comming from something odd in the AlphabetManager. I'll have a look into it.
java.io.InvalidObjectException: Couldn't reso
Hi -
Looks like the same problem from the other side. I'll have a look at it this afternoon.
- Mark
-Original Message-
From: Mark Southern [mailto:[EMAIL PROTECTED]
Sent: Tue 7/10/2003 3:50 a.m.
To: Schreiber, Mark; [EMAIL PROTECTED]
Cc:
Hi -
One way would be to make a Alphabet for the structure based on Symbols for the
characters. You could then make a cross product of that Alphabet and the
RNA alphabet and make SymbolLists over that cross product Alphabet. Each Symbol would
then have an RNA component and a struc
Hi Mark,
I have downloaded and tested the latest EmblFileFormer.java (1.24.2.1) and
it can now successfully write out a swissprot format file after first having
written it in (Thank you).
However, i am still seeing an exception attempting to read in a serialized
sequence. Test code and exception b
Hi all,
I just started to use BioJava and I like it very much - so thank you to all
Developers because it saves me a lot of work.
The idea to use a list of objects instead of a string sounds logical to me
although it needs a while to get used to it.
Concerning that I have a question:
I want so s
