[Biojava-l] Install question: classpath and use of jar files in compiling TestEmbl.java

Travis Rodkey trodkey at rice.edu
Wed Nov 30 11:16:13 EST 2005


Hi - I am new to biojava and am trying to get it set up on Red Hat EE 3 
running on a PC.   I have java 1.4.2 and jdk1.4.2.0 installed.

I downloaded the necessary jar files (biojava1.4.jar, bytecode-0.92.jar, 
commons-cli.jar, commons-collections-2.1.jar, commons-dbcp-1.1.jar, 
commons-pool-1.1.jar) and placed them a /homes/trodkey/biojava directory 
as per the "Getting Started" section.

I then fixed the classpath variable to "setenv CLASSPATH 
/homes/trodkey/biojava/biojava-1.4.jar:/homes/trodkey/biojava/bytecode-0.92.jar:
/homes/trodkey/biojava/commons-cli.jar:/homes/trodkey/biojava/commons-collections-2.1.jar:
/homes/trodkey/biojava/commons-dbcp-1.1.jar:/homes/trodkey/biojava/commons-pool-1.1.jar:."
as per the instructions.

I then tried to compile TestEmbl.java as suggested in the "Getting 
Started" section by using "javac 
/homes/trodkey/biojava/demos/seq/TestEmbl.java", and got the error

"/homes/trodkey/biojava/demos/seq/TestEmbl.java:5: package 
homes.trodkey.biojava.org.biojava.bio does not exist", which was the 
first of a string of 15 errors.

Can anyone help me out? 

Thanks!

-Travis Rodkey



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