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$Id$
o Version
This is Bioperl-run version 1.2.2., a stable bug fix release
o Description
bioperl-run contain modules that provides a PERL interface to various
bioinformatics applications. This allows various applications to be
used with common bioperl objects.
See the Changes file for more information about what is contained in
here.
o Installation
You need to have the core bioperl installation before using
bioperl-run. Select a bioperl distribution with the same release
version.
The installation of this package is identical to the core bioperl
install.
Essentially
% perl Makefile.PL
% make
% make test (some tests may not succeed if you do not have the
necessary programs or env variables defined)
% su
# make install
o Environmental variables
Some important environment variables you need to be aware of.
Variable Values Comment
--------------------------------------------------------------------
PHYLIPVERSION 3.5, 3.6 If you want to run Phylip3.6 you
Need to set this env variable to 3.6
BLASTDIR DIR PATH Point to the directory where BLAST
is installed
GENSCAN_DIR DIR PATH Point to the directory where
HumanIso.smat file is installed
EPONINEDIR DIR PATH Point to the directory where
eponine_scan.jar is installed
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