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Hi Dr Chen,
You say that you have placed the jar files in a
c:\biojava directory, but your classpath entries don't seem to be respecting
this. Have you tried the classpath:
set
CLASSPATH=CLASSPATH=C:\biojava\biojava.jar;C:\biojava\xerces.jar;C:\biojava\bytecode.jar;.
A good check to make sure things are in the
classpath is to use the javap program. Try:
javap java.lang.String
You should get a lot of text describing the methods
on the String class. Now try:
javap org.biojava.bio.Annotation
You should get text describing the methods on
Annotation in biojava. If not, your classpath is incorrectly set, or the .jar
archive is corrupted. To check the jar, change into the c:\biojava directory and
type:
jar -tf biojava.jar
You should get a long listing of all the files in
the archive. If you get an error message about the .jar being corrupted, then
that is your problem.
I hope some of this helps. If you are still having
problems then post to the list again, or come onto chat at:
irc.openprojects.net
#biojava
Best,
Matthew
Dear Biojava friends
I have donwnloaded
the three files biojava-1.21jar, bytecode-0.90.jar and xerces.ar on my
windows2000 machine. I put them in the directory c:\biojava. I set up
the class path CLASSPATH=C:\biojava.jar;C:\xerces.jar;C:\bytecode.jar;.using
control panel , system, user variables.
when I compile a demo progra
GCContent.java , I get compile err,
biojava/GCContent.java [3:1]
package org.biojava.bio.seq does not exist
import
org.biojava.bio.seq.*;
^
biojava/GCContent.java [4:1] package
org.biojava.bio.seq.io does not exist
import
org.biojava.bio.seq.io.*;
^
biojava/GCContent.java [18:1] cannot resolve
symbol
symbol : class SequenceIterator
location: class
GCContent
SequenceIterator
stream =
SeqIOTools.readFastaDNA(br);
^
biojava/GCContent.java [18:1] cannot resolve symbol
symbol :
variable SeqIOTools
location: class
GCContent
SequenceIterator
stream =
SeqIOTools.readFastaDNA(br);
^
biojava/GCContent.java [23:1] cannot resolve symbol
symbol :
class Sequence
location: class
GCContent
Sequence seq =
stream.nextSequence();
^
biojava/GCContent.java [26:1] cannot resolve symbol
symbol :
class Symbol
location: class
GCContent
Symbol sym =
seq.symbolAt(pos);
^
biojava/GCContent.java [27:1] cannot resolve symbol
symbol :
variable DNATools
location: class
GCContent
if (sym == DNATools.g() || sym ==
DNATools.c())
^
biojava/GCContent.java [27:1] cannot resolve symbol
symbol :
variable DNATools
location: class
GCContent
if (sym == DNATools.g() || sym ==
DNATools.c())
^
9 errors
Errors compiling GCContent.
I would like to get
some help to solve the problem. I am newcomer in
java
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