Codon Optimal Likelihood Discoverer
This COLD homepage has the latest version for downloading.
Dowload Version 1.2.2
Installation Instructions
Download the package. (You may need to turn off pop-up blocking
to download in some browsers.)
Unzip the package (It was zipped using Gnu zip)
Extract all the files.
This will extract a directory "Documentation", which contains
files with more detailed instructions.
Run "make" in the directory containing the
files. (Usually, this just involves typing "make"). You may wish to
set some compilation options at this point (in particular, the
directory in which you want to install the data files) - see
cold.info for details. Note that you will need to have a c++
compiler for this step.
If it works, you can install the program by typing "make
install". This should mean that the program is available to be
run from anywhere on your system. Note that the installation
directory should be set when running the first make
command, as this compiles the correct directories for file-searching
into the program. These settings are saved during compliation, and
automatically used when you type make install
The package has not been extensively tested for portability. The
following is a list of tested systems and configurations, with any
notes about installation and running.
| Operating System | Compiler | Issues |
Ubuntu Linux
10.04 | Linux Kernel:
2.6.32-27 | 64
bit |
| Gnu
c++ compiler g++ | Version
4.4.3 |
| No issues with
compilation or execution |
Linux Mint 10
Julia | Linux Kernel:
2.6.35-22-generic | 64
bit |
| Gnu
c++ compiler g++ | Version
4.4.5 |
| No issues with
compilation or execution |
Centos Linux release
5.5 (Final) | Linux Kernel:
2.6.18-194.11.4.el5 | 64
bit |
| Gnu
c++ compiler g++ | Version
4.4.0 |
| No issues with
compilation or execution |
| | No issues with
compilation or execution |
If you install it successfully,
or have difficulty installing it, on a system or configuration not
listed here, or if your configuration is listed here, but the results
are different, please send me an email
( tkenney@mathstat.dal.ca)
and I'll update the website. If necessary, I may also update the
software to fix any problems.
Documentation
The documentation files are all included in the package, in the
directory
Documentation. However, brief summaries are
available here.
| installation.html | Information on
installing COLD and configuration options. |
| cold.html | Information on
running COLD, command-line options and interpreting the output. |
| files.html | Information on
the format of various files used by COLD. |
| utilities.html | Information
on the utilities provided with COLD to help with setting up
files. |
These are quite old, so some things may be out of date. A more
detailled and up-to-date manual is here. It is
still not completely up-to-date.
Old versions