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.gitignore
.travis.yml
CHANGELOG.rst
CITATION.rst
LICENSE
MANIFEST.in
Makefile
README.md
README.rst
UI_update.md
_msprimemodule.c
algorithms.py
appveyor.yml
circle.yml
ez_setup.py
large-example.py
msp_dev.py
mspms_dev.py
setup.cfg
setup.py
stress_lowlevel.py
verification.py
data/Makefile
data/msdir/Makefile
data/msdir/README
data/msdir/ms.c
data/msdir/ms.h
data/msdir/rand1.c
data/msdir/sample_stats.c
data/msdir/streec.c
data/msdir/tajd.c
docs/.gitignore
docs/CITATION.rst
docs/Doxyfile
docs/Makefile
docs/api.rst
docs/cli.rst
docs/conf.py
docs/development.rst
docs/examples.py
docs/index.rst
docs/installation.rst
docs/interchange.rst
docs/introduction.rst
docs/tutorial.rst
docs/_static/.README
docs/_static/hapmap_chr22.svg
docs/_static/ld.svg
docs/_templates/.README
lib/Makefile
lib/argtable3.c
lib/argtable3.h
lib/avl.c
lib/avl.h
lib/dev.cfg
lib/err.h
lib/fenwick.c
lib/fenwick.h
lib/hapgen.c
lib/ld.c
lib/main.c
lib/msprime.c
lib/msprime.h
lib/mutgen.c
lib/newick.c
lib/object_heap.c
lib/object_heap.h
lib/recomb_map.c
lib/simulation_tests.c
lib/table.c
lib/tests.c
lib/tree_sequence.c
lib/vargen.c
lib/vcf.c
msprime/__init__.py
msprime/_version.py
msprime/cli.py
msprime/drawing.py
msprime/exceptions.py
msprime/formats.py
msprime/provenance.py
msprime/simulations.py
msprime/stats.py
msprime/tables.py
msprime/trees.py
msprime.egg-info/PKG-INFO
msprime.egg-info/SOURCES.txt
msprime.egg-info/dependency_links.txt
msprime.egg-info/entry_points.txt
msprime.egg-info/pbr.json
msprime.egg-info/requires.txt
msprime.egg-info/top_level.txt
requirements/conda-minimal.txt
requirements/development.txt
requirements/readthedocs.txt
requirements/tests-pypi.txt
requirements/verification.txt
tests/__init__.py
tests/test_cli.py
tests/test_demography.py
tests/test_drawing.py
tests/test_hdf5.py
tests/test_highlevel.py
tests/test_lowlevel.py
tests/test_metadata.py
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tests/test_newick.py
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tests/test_wright_fisher.py
tests/tsutil.py
tests/data/hdf5-formats/msprime-0.3.0_v2.0.hdf5
tests/data/hdf5-formats/msprime-0.4.0_v3.1.hdf5
tests/data/simplify-bugs/01-edges.txt
tests/data/simplify-bugs/01-mutations.txt
tests/data/simplify-bugs/01-nodes.txt
tests/data/simplify-bugs/01-sites.txt
tests/data/simplify-bugs/02-edges.txt
tests/data/simplify-bugs/02-mutations.txt
tests/data/simplify-bugs/02-nodes.txt
tests/data/simplify-bugs/02-sites.txt
tests/data/simplify-bugs/03-edges.txt
tests/data/simplify-bugs/03-mutations.txt
tests/data/simplify-bugs/03-nodes.txt
tests/data/simplify-bugs/03-sites.txt
tests/data/simplify-bugs/04-edges.txt
tests/data/simplify-bugs/04-mutations.txt
tests/data/simplify-bugs/04-nodes.txt
tests/data/simplify-bugs/04-sites.txt
tests/data/simplify-bugs/05-edges.txt
tests/data/simplify-bugs/05-mutations.txt
tests/data/simplify-bugs/05-nodes.txt
tests/data/simplify-bugs/05-sites.txt