tapir has several dependencies. At a minimum you will need to install:
tapir uses hyphy for substitution model selection and site rate estimation. Additionally, hyphy needs to be compiled as a single-threaded binary. We provide appropriate binaries for:
You need to download these and place them within your $PATH. If this statement confuses you, then you should read this article on UNIX paths.
You first need to install numpy. Barring platform-specific options, you can accomplish this by running:
easy_install numpy
Sometimes on OSX, this is problematic. There is a numpy binary installer that you can use in this case.
You also need to install scipy. Barring platform-specific options, you can accomplish this by running:
easy_install scipy
Sometimes on OSX, this is problematic. There is a scipy binary installer that you can use in this case.
To produce pretty and relatively pain-free graphics, you will need to install rpy2. This is generally easily done using:
easy_install rpy2
Although this is currently not working on OSX Lion (see here for temporary workaround).
To produce more basic figures, you can use matplotlib which is installed using:
easy_install matplotlib