Msprime

Changes from previous version:
- Installation instructions for Mac on Homebrew
- Improved documentations, removing TODO items.
- Added initial version of msp command line utility
- Added low-level LeafListIterator, improves performance of leaves() method.
- Improved performance of haplotype generation.

This is a pre-release to allow testing of installation on various platforms.

- Fixes a bug in which dump did not work after an explicit call to set_mutations.
- Adds a get_index function to the SparseTree class that gives the index of the tree within the sequence.

This release adds support for counting a specific subset of the leaves in a tree.

Changes:
- Minor change to the signature for TreeSequence.trees(), which now takes an optional list of tracked leaves.
- Added the SparseTree.get_num_tracked_leaves() method to count the number of these leaves in the subtree rooted at a given node.

This is the initial release of the API. Any documented APIs will try to remain stable from this point, and will go through a process of deprecation before change.

This is a minor update to 0.1.2a1 fixing missing files and version number problems.

This is the initial version of the Python API with draft documentation. This should be considered alpha status, and many details of how the API works may change before it is stabilised.