GQL: Analyzing time-course data

Linux & Unix Version

You will need to install the following packages before you install GHMM. The version 1.0 of GQL will only work with the most recent version of GHMM.

Tk (as in Tcl/Tk) in a version newer than 8.3.x. There are binary packages for most Linux distributions. You can find sources at www.tcl.tk/software/tcltk/. Tk provides the GUI toolkit.
Python version 2.3.x. This is the interpreter for language Python, the GQL-software is written in. Again, most Linux distributions have binary packages for Python. Make sure to choose Tkinter (the link to the Tk-framework) support. Sources etc. can be found at www.python.org.
GSL, the GNU scientific library is at www.gnu.org/software/gsl/gsl.html. It provides a vast amount of mathematical functions, of which we just use a tiny bit.
PyGSL allow us to call the GSL from Python. You can find the sources at pygsl.sourceforge.net.

Download GQL-Unix-1.0.zip.
Uncompress and untar the file you downloaded
Set your PYTHON_PATH to include the directory where the ghmm.py has been installed (typically {prefix}/lib/python2.3/site-packages)
Note, your LD_LIBRARY_PATH must contain the directory where libghmm etc. reside

Start the Python interpreter by typing 'python2.3' in your shell. The following commands should not produce no output.
- import Tkinter
- t = Tkinter.Tk() # A window should pop-up
- import pygsl
- import ghmm
If you see error messages, check whether you used the correct Python version for installing (pygsl should be in site-packages in the lib/python2.3 directory), whether your PATH and your LD_LIBRARY_PATH variable include the directories which contain the files you are trying to use. Also, if you did not install stuff yourself, check the protections.
Messages in the console: GQL still outputs diagnostics and warnings. This is still a feature
Why does GQL not have feature X? Feel free to implement it.

You will need a Mac OS 10.3 or latter version.

You will need Windows 98 or latter version.

Download GQL-Win-1.0zip.
Uncompress the file you downloaded and double click it at GQLCluster or GQLQuery!

See readme.txt avaliable in the unix/linux version for a non binary installation on windows.