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version bump
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petrelharp committed Dec 20, 2021
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15 changes: 10 additions & 5 deletions CHANGELOG.rst
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[UPCOMING.X.X] - XXXX-XX-XX
***************************

********************
[0.700] - 2021-02-24
********************

**Breaking changes**:

- `pyslim.recapitate` is updated to use new demography features in msprime 1.0,
and differs from `SlimTreeSequence.recapitate()` (now deprecated). The
argument `Ne` is removed; use `ancestral_Ne`.
and differs from `SlimTreeSequence.recapitate()` (now deprecated). Since
the backend is now `msprime.sim_ancestry()` instead of `msprime.simulate()`,
the argument `Ne` should be replaced with `ancestral_Ne`.

- `reference_sequence` is now a tskit attribute, no longer managed by pyslim.
It is no longer mutable on tree sequences (only TableCollections), and
previous calls to `ts.reference_sequence` to get the actual sequence
- `reference_sequence` is now a tskit TreeSequence attribute, no longer managed
by pyslim. It is no longer mutable on tree sequences (only TableCollections),
and previous calls to `ts.reference_sequence` to get the actual sequence
should be replaced by `ts.reference_sequence.data`.

- Old-style "legacy" metadata (previously deprecated) has been removed.
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2 changes: 1 addition & 1 deletion pyslim/_version.py
@@ -1,5 +1,5 @@
# coding: utf-8
pyslim_version = '0.600'
pyslim_version = '0.700'
slim_file_version = '0.7'
# other file versions that require no modification
compatible_slim_file_versions = ['0.7']

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