Skip to content

Python 0.3.2
Compare
Choose a tag to compare
@benjeffery benjeffery released this 29 Sep 13:23
· 1710 commits to main since this release
0.3.2
8504d2f
This commit was created on GitHub.com and signed with GitHub’s verified signature. The key has expired.
GPG key ID: 4AEE18F83AFDEB23
Expired
Learn about vigilant mode.

Minor feature release

Breaking changes

  • Change several methods (simplify(), trees(), Tree()) so most parameters
    are keyword only, not positional. This allows reordering of parameters, so
    that deprecated parameters can be moved, and the parameter order in similar functions,
    e.g. TableCollection.simplify and TreeSequence.simplify() can be made
    consistent (@hyanwong, #374, #846, #851)

Features

  • Tree accessor functions (e.g. ts.first(), ts.at() pass extra parameters such as
    sample_indexes to the underlying Tree constructor; also root_threshold can
    be specified when calling ts.trees() (@hyanwong, #847, #848)

  • Genomic intervals returned by python functions are now namedtuples, allowing .left
    .right and .span usage (@hyanwong, #784, #786, #811)

  • Added include_terminal parameter to edge diffs iterator, to output the last edges
    at the end of a tree sequence (@hyanwong, #783, #787)

  • #832 - Add metadata_bytes method to allow access to raw
    TableCollection metadata (@benjeffery, #842)

  • New tree.is_isolated(u) method (@hyanwong, #443).

  • tskit.is_unknown_time can now check arrays. (@benjeffery, #857).

Assets 2
Loading