[EMBOSS] EMBOSS and Jemboss installation problems
Pierre Scotney
pscotney at hotmail.com
Tue Mar 23 07:16:41 UTC 2004
Hello,
I am having problems installing EMBOSS and Jemboss. I have read all the
INSTALL and README docs in the EMBOSS-2.8.0 directory and the web docs for
Jemboss standalone installation, so please no RTFM responses :)
I am building EMBOSS-2.8.0 on a GNU/Linux system (Mandrake 9.1) with
Blackdown Java j2sdk-1.3.1-02b-FCS-linux-i386 installed and running ok. I
have installed zlib-1.2.1 libpng-1.2.5 and gd-2.0.22 so all the libraries
and includes are present.
I build as root with the following commands:
cd EMBOSS-2.8.0
./configure --prefix=/usr/local/emboss
make
make install
cd jemboss/utils
./install-jemboss-server.sh
selecting the option (2) STANDALONE and the rest of the prompts. The
generated /usr/local/emboss/share/EMBOSS/jemboss/runJemboss.sh and
/usr/local/emboss/share/EMBOSS/jemboss/resources/jemboss.properties files
all look ok with the correct paths.
I have added /usr/local/emboss/{bin,lib} to the PATH and ld.so.conf
respectively and wosname -auto is working:
ALIGNMENT CONSENSUS
cons Creates a consensus from multiple alignments
megamerger Merge two large overlapping nucleic acid sequences
merger Merge two overlapping nucleic acid sequences
etc.....
but when I
cd /usr/local/emboss/share/EMBOSS/jemboss
./runJemboss.sh
all I ever get is the following error:
Exception in thread "main" java.lang.NoClassDefFoundError:
org/emboss/jemboss/Jemboss
What have I done wrong? Please help!
Regards
Pierre
--
Dr Pierre Scotney
Melbourne
Australia
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