MICHECK

16-04-2004

This package contains the binaries to execute the MICheck process.
Read this README file carefully for a good use of MICheck.

REQUIREMENTS :

The MICheck tools are composed of C compiled programs, perl scripts 
and bash scripts. Please check that Awk, Bash, Perl and common utilities 
(like sed, wc, tail ...), are installed on your system.


INSTALL :

The MICheck binaries are available for :
- intel Linux (Compiled with gcc 3.2.2)
- Digital Dec Osf1 (Compiled with cc for OSF1 alpha )
- Sparc SunOS 5.9 (Compiled with cc for SunOS 5.9 sparc)
- MacOS X (Compiled with gcc 3.1 Darwin 6.8)

The installation is the same for all platforms, in a terminal session type :
> tar xvf micheck-"platform"-"version".tar 

This creates a directory with binaries inside.
To install the package, in a terminal execute the install_MICHECK.sh program.

There is no need to set the PATH to the binaries since this variable is 
required to run MICheck.
(for futher informations, read the following section USE)


 
USE :

The basic command line to launch MICheck is the following :
runMICHECK <ANNOTATIONS FILE> <MATRICE FILE>

The first argument is the annotation file (in GENBANK or EMBL format), the matrix files (downloaded from our web site, files name ended 
by a .bin) . If the matrix files are not present in this directory, MICheck will build its own model and use it to perform computations.


The execution of MICheck takes a while depending on the performance 
of your system and on the data to be treated.



Please feel free to contact us for any informations, suggestions or comments at agc@genoscope.cns.fr


