Some of Mercator's functions depend on some otehr applications that are not present in a basic Impilo install. \\Taken from the README file:

PREREQUISITES
-------------
In order to successfully compile the programs in this package, you
must have a couple of external packages installed.  These are:

- Optik: http://optik.sourceforge.net/
  - Only required if your version of python is < 2.3.
    This python library must be installed system-wide or in your
    personal python library directory (e.g. $HOME/lib/python).

- BLAT: http://www.cse.ucsc.edu/~kent/
  - Only required if you wish to generate input for the
    mercator program using the makeMercatorInput script.

- Genscan: http://genes.mit.edu/GENSCAN.html
  - Only required if you wish to run the makeMavidConstraints script
    for generating constraints for the MAVID multiple alignment
    program

- Polymake: http://www.math.tu-berlin.de/polymake/
  - Only required if you wish to build the parametricAlign program.
  - If installed, the environment variable POLYMAKE_PATH should be set
    to the directory in which you have installed the polymake package
    (using both the "make install" and "make install-devel" commands in
    the unpacked polymake directory)

If those functions are interesting for you, you will need to install them yourself in your local install or your virtual machine and rebuild Mercator from scratch. Sine a copy of this wiki is present on any Impilo install, don't forget to change this page too!!

Here is the procedure to install Mercator from source code:

• The source code archive has been downloaded from its web location, decompressed in /home/bioubuntu and moved into /opt/bio/sources/.

• The /opt/bio/sources/cndsrc-2009.11.17 folder should belong to root and its permissions set to 755.

% sudo chown -R root:root /opt/bio/sources/cndsrc-2009.11.17

• Once you are in /opt/bio/sources/cndsrc-2009.11.17, compilation is easily done:

% sudo make

• To make sure that anyone can use the application:

% sudo ln -s /opt/bio/sources/cndsrc-2009.11.17/apps/mercator /usr/local/bin/mercator