Downloading tax2tree¶

The latest stable release of tax2tree can be downloaded here.

Required Software¶

tax2tree is built using the PyCogent package. You must have PyCogent >= 1.5 installed, details can be found at the PyCogent install page.

Installation Steps¶

1. Download PyCogent (src) and its dependencies, Python 2.6 or 2.7 and NumPy >= 1.3.0. Install according to the PyCogent installation instructions.

2. From your command line terminal on OS X or Linux, change to the directory where you wish to install tax2tree and download tax2tree. The latest version of tax2tree can be downloaded from here.

3. Unpack the downloaded tarball. This will create a directory named tax2tree-<version> where <version> is populated by the version of tax2tree. For consistency, all instructions below refer to this directory as tax2tree.

4. Run setup.py. If you are installing system-wide, you will need to become root. To install:

   cd tax2tree
   python setup.py install

   Or, if installing in your $HOME directory:

   cd tax2tree
   python setup.py install --prefix=$HOME

5. Run the test suite

   cd tests
   python test_consensus.py
   python test_nlevel.py
   python test_util.py

6. If all tests pass, you can get usage information for tax2tree from:

   cd
   t2t_workflow -h