Installing Bioperl-ext on SuSE

From BioPerl

With bioperl-ext the story is reversed. Having just installed bioperl-1.5.x you'd think you wanted bioperl-ext-1.5 but it really doesn't have a testing suite yet. (as at 2006-06-02)

So we're back to bioperl-ext-1.4

You're not going to get the useful bit (SeqIO) without the staden "io_lib" libraries.

So off to

   http://sourceforge.net/projects/staden  or more specifically
   http://sourceforge.net/project/showfiles.php?group_id=100316

Compile and install, It seems to compile. I used ./configure --prefix=/opt/io_lib/

You can get bioperl-ext-1.4 in CPAN so lets:

   root> perl -MCPAN -e shell
   install B/BI/BIRNEY/bioperl-ext-1.4.tar.gz   It doesn't work.
   look B/BI/BIRNEY/bioperl-ext-1.4.tar.gz
       cd into BioSeqIO/staden
       make test  The problem seems to centre around "undefined symbol: deflateInit2_"

Haven't got it to work yet, let me know if you have solved this.

DON'T just ignore the failed tests and "make install" UNLESS YOU ARE PREPARED TO BLOW THE WHOLE Bio modules directory out of perl and start again!

You want to ignore the warning?

   make install?
   now cd back to bioperl-1.5.1
   try make test again? Not good eh?

Hardly even $.02 worth eh? michaelj