0.1.4

Bugfix.

• Fix issue caused by upstream changes in numcodecs (#136).

Update release to match preprint

This release corresponds to the code used in the Biorxiv preprint.

Support for Individual and Population metadata

Minor update to take advantage of msprime 0.6.0's Population and Individual objects and fix various bugs.

Breaking changes:

• Bumped SampleData file format version to 1.0 because of the addition of individuals and populations. Older SampleData files will not be readable and must be regenerated.

• Changed the order of the alleles and genotypes arguments to SampleData.add_site.

New features:

• Sample and individual metadata now handled correctly.

• Added --no-simplify option to CLI and simplify=True option to infer function.

• Better handling of missing files (raises correct exceptions).

• tsinfer list now presents basic information for .trees files.

Bug fixes:

• Degenerate examples with zero inference sites are now rooted (#44)

• Simplify=False results in tree sequence with correct sample nodes.

Bugfix release

Fix for packaging bug in 0.1.0.

Initial release for feedback

This is an early alpha pre-release of tsinfer to get feedback from users.