Install meme

MEME needs to be downloaded and compiled. It is not checked in.

Current version used is 4.9.0 patch 2.

Download from Meme Website

To compile and install/configure:

1. Unzip into /PhenoGen/perl/MEME/memeInst
2. Download patches for version installed
3. Run patches

patch -p1 -i patch_4.9.0_1
patch -p1 -i patch_4.9.0_2

1. Run

./configure --prefix=/usr/share/tomcat/webapps/PhenoGen/perl/MEME/meme490 --with-url=http://meme.nbcr.net/meme 

This installs it to the default location where Phenogen expects it. If using meme### other than 490 will need to change the path used for meme to reflect that. Just /src/.../tools/Promotor/AsyncMeme.java there is a memeDir variable where this is hard coded.

1. Run

Default:

make
make test
make install

on Fedora 12(test(Don't forget to change the path below PhenoGenTEST) and prod):

cd memeInst
autoreconf -i -f
./configure --prefix=/usr/share/tomcat/webapps/PhenoGen/perl/MEME/meme490 --with-url=http://meme.nbcr.net/meme
make
make test
make install

That should install the application to the right location. /perl/MEME/meme###

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