To install the eMOTIF package, perform the following steps:
1. Obtain the program files in emotif-3.6.tar.gz and the database
files in the einputs.tar.gz. Place them in the same directory, and
unpack each file:
gunzip .gz
tar -xvf .tar
where corresponds to the appropriate filename.
2. Go into the emotif-3.6 directory. Edit the file site.defs to
define various directories and default parameters. Do NOT include any
extra spaces around the equals signs.
3. Follow the instructions in the file INSTALL. The directions in that
file are the standard installation instructions for the GNU configure
package. Program installation requires root privilege.
./configure
make
make install
make check
For a customized configuration, the GNU configure package allows you
to set certain environment variables, such as CC (your desired C
compiler), CXX (your desired C++ compiler), and CFLAGS, before you run
configure.
The emotif-3.6 package includes a Web interface. This interface
will be located in the CGIDIR (currently defined as
/home/httpd/cgi-bin) and HTMLDIR (currently defined as
/home/httpd/html) directories defined in site.defs. If you
do not want to install the Web interface, you may delete these
directories after installation.
To install the eBAS package, perform the following steps:
1. Put the downloaded file, eBAS-3.6.tar.gz, in the desired location
in your filesystem. Type the following two commands:
% gunzip eBAS-3.6.tar.gz
% tar -xvf eBAS-3.6.tar
2. Once eBAS-3.6.tar.gz has been untarred and unzipped, two files
should now exist in the filesystem:
% ls
eBAS-3.6 eBAS-3.6.tar
3. To configure the eBAS-3.6 automatically for your platform, type
the following two commands:
% cd eBAS-3.6/
% ./configure
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To cite this work, use the following reference:
Jimmy Y. Huang and Douglas L. Brutlag, "The EMOTIF Database," Nucleic Acids
Res., 2001, 29, 202-204.
Craig G. Nevill-Manning, Thomas D. Wu, and Douglas L. Brutlag, "Highly
specific protein sequence motifs for sequence analysis", Proc. Natl.
Acad. Sci., USA, 1998, 95: 5865-5871.
Please send questions and comments to ALL of the following people:
Jimmy Y. Huang (yhuang@leland.stanford.edu)
Thomas D. Wu (twu@gene.COM)
Craig Nevill-Manning (http://craig.nevill-manning.com)
Douglas L. Brutlag (http://cmgm.stanford.edu/~brutlag)
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