tskit 1.0.0b3__cp313-cp313-win_amd64.whl → 1.0.1__cp313-cp313-win_amd64.whl

tskit/util.py

@@ -31,7 +31,6 @@ import json
 import numbers
 import os
 import textwrap
-from typing import Union
 
 import numpy as np
 
@@ -86,9 +85,9 @@ def is_unknown_time(time):
     non-NAN value.
 
     :param time: Value or array to check.
-    :type time: Union[float, array-like]
+    :type time: float | array-like
     :return: A single boolean or array of booleans the same shape as ``time``.
-    :rtype: Union[bool, numpy.ndarray[bool]]
+    :rtype: bool | numpy.ndarray[bool]
     """
     return np.asarray(time, dtype=np.float64).view(np.uint64) == np.float64(
         UNKNOWN_TIME
@@ -771,13 +770,13 @@ def variant_html(variant):
             + f"""
                 <tr><td>Site Id</td><td>{format_number(site_id)}</td></tr>
                 <tr><td>Site Position</td><td>{format_number(site_position)}</td></tr>
-                <tr><td>Number of Samples</td><td>{format_number(num_samples)}</td></tr>
+                <tr><td>Number of Nodes</td><td>{format_number(num_samples)}</td></tr>
                 <tr><td>Number of Alleles</td><td>{format_number(num_alleles)}</td></tr>
             """
             + "\n".join(
                 [
-                    f"""<tr><td>Samples with Allele {'missing' if k is None
-                                                     else "'" + k + "'"}</td><td>"""
+                    f"""<tr><td>Nodes with Allele {'missing' if k is None
+                                                   else "'" + k + "'"}</td><td>"""
                     + f"{format_number(counts[k])}"
                     + " "
                     + f"({format_number(freqs[k] * 100, 2)}%)"
@@ -855,7 +854,7 @@ def truncate_rows(num_rows, limit=None):
     )
 
 
-def random_nucleotides(length: numbers.Number, *, seed: Union[int, None] = None) -> str:
+def random_nucleotides(length: numbers.Number, *, seed: int | None = None) -> str:
     """
     Returns a random string of nucleotides of the specified length. Characters
     are drawn uniformly from the alphabet "ACTG".

{tskit-1.0.0b3.dist-info → tskit-1.0.1.dist-info}/METADATA

@@ -1,9 +1,9 @@
 Metadata-Version: 2.4
 Name: tskit
-Version: 1.0.0b3
+Version: 1.0.1
 Summary: The tree sequence toolkit.
 Author-email: Tskit Developers <admin@tskit.dev>
-License: MIT
+License-Expression: MIT
 Project-URL: Homepage, https://tskit.dev/tskit
 Project-URL: Documentation, https://tskit.dev/tskit/docs/stable
 Project-URL: Changelog, https://tskit.dev/tskit/docs/stable/changelogs.html
@@ -17,11 +17,11 @@ Classifier: Programming Language :: Python :: 3.10
 Classifier: Programming Language :: Python :: 3.11
 Classifier: Programming Language :: Python :: 3.12
 Classifier: Programming Language :: Python :: 3.13
+Classifier: Programming Language :: Python :: 3.14
 Classifier: Programming Language :: Python :: 3 :: Only
 Classifier: Development Status :: 5 - Production/Stable
 Classifier: Environment :: Other Environment
 Classifier: Intended Audience :: Science/Research
-Classifier: License :: OSI Approved :: MIT License
 Classifier: Operating System :: POSIX
 Classifier: Operating System :: MacOS :: MacOS X
 Classifier: Operating System :: Microsoft :: Windows
@@ -39,9 +39,9 @@ Requires-Dist: dendropy==5.0.1; extra == "test"
 Requires-Dist: kastore==0.3.3; extra == "test"
 Requires-Dist: lshmm==0.0.8; extra == "test"
 Requires-Dist: msgpack==1.1.0; extra == "test"
-Requires-Dist: msprime==1.3.4; extra == "test"
+Requires-Dist: msprime==1.4.0b2; extra == "test"
 Requires-Dist: networkx==3.2.1; extra == "test"
-Requires-Dist: numba==0.61.2; extra == "test"
+Requires-Dist: numba==0.63.1; extra == "test"
 Requires-Dist: portion==2.6.0; extra == "test"
 Requires-Dist: pytest==8.3.5; extra == "test"
 Requires-Dist: pytest-cov==6.0.0; extra == "test"
@@ -57,8 +57,8 @@ Requires-Dist: breathe==4.35.0; extra == "docs"
 Requires-Dist: sphinx-autodoc-typehints==2.3.0; extra == "docs"
 Requires-Dist: sphinx-issues==5.0.0; extra == "docs"
 Requires-Dist: sphinx-argparse==0.5.2; extra == "docs"
-Requires-Dist: msprime==1.3.3; extra == "docs"
-Requires-Dist: numba==0.61.2; extra == "docs"
+Requires-Dist: msprime==1.4.0b2; extra == "docs"
+Requires-Dist: numba==0.63.1; extra == "docs"
 Requires-Dist: sphinx-book-theme; extra == "docs"
 Requires-Dist: pandas==2.2.3; extra == "docs"
 Provides-Extra: dev
@@ -84,7 +84,7 @@ Requires-Dist: tszip; extra == "dev"
 Requires-Dist: xmlunittest; extra == "dev"
 Requires-Dist: newick; extra == "dev"
 Requires-Dist: zarr<3; extra == "dev"
-Requires-Dist: jupyter-book; extra == "dev"
+Requires-Dist: jupyter-book<2; extra == "dev"
 Requires-Dist: breathe; extra == "dev"
 Requires-Dist: sphinx-autodoc-typehints; extra == "dev"
 Requires-Dist: sphinx-issues; extra == "dev"

tskit-1.0.1.dist-info/RECORD

@@ -0,0 +1,27 @@
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+tskit/_version.py,sha256=uX-N5gTXhCS8F_YN-H2K2SKlta42U93gKUCKNc_D82c,146
+tskit/cli.py,sha256=kcWbw-lujEAYT5GQXU2gzcZOW3RHhcegH1D7S1-RNFE,9029
+tskit/combinatorics.py,sha256=tCMk1iJU5kBg-8dd_ZVy_WlTHA4VjYJsFYKUZ3MwHEE,57397
+tskit/drawing.py,sha256=K5sTZidUpQVmE5NaO_GZ66mpZ0DvoljNuVeQJ1Kroco,114065
+tskit/exceptions.py,sha256=1BelxLcli8oc0jnHu9BD0g1ESu8Aolw9bigfTA9GGms,2462
+tskit/genotypes.py,sha256=WTUYJzTbjab_Rs4_sBzdCvPTpOV19hpd7vtpk33Mj4k,18269
+tskit/intervals.py,sha256=0FLGFrxba6QzQLtd-a-xLonxM1fWwgtLpml_jOvz_Y4,24532
+tskit/metadata.py,sha256=vApzwCVGJF-Cb4TdwX4zHBzNLDkctX3AS8qjAGzuhl8,43121
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+tskit/text_formats.py,sha256=NBA9hyshoc8dMUrwAxCF0yLW4RcbZ6FhgRsNJDbadfQ,15428
+tskit/trees.py,sha256=T3JO80vx6c-oIuyvgC76rVepGbqI-xVn848IL62nIL8,512821
+tskit/util.py,sha256=a5I1AORM_3jPiMWxdD2fmEn7l_y-CxkIHY1vX1-wTUY,36398
+tskit/vcf.py,sha256=U6IqXuw8mWO7K5DgjmKH9s7GjSJHrnCDK53sMoq9UNQ,8814
+tskit/jit/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
+tskit/jit/numba.py,sha256=vyH3Hpa1_a3PJMGLli9Zw8_t8nPJx7pO46z5PFd7xP4,25453
+tskit-1.0.1.dist-info/licenses/LICENSE,sha256=h92w-U3mbrRNLntc2_9qHbCB2MmJsvDSBia6BTUCwLE,1099
+tskit-1.0.1.dist-info/METADATA,sha256=bqeeOmfzwj-MUl8ctb1CQDM0CtXQ6VFJATI4pLjRmf4,4660
+tskit-1.0.1.dist-info/WHEEL,sha256=-WvvtQtdhM1F5HMi-4hSXLQ_1Tg6qJRWO1HnLNr4mCU,102
+tskit-1.0.1.dist-info/entry_points.txt,sha256=3Zik1X8C9Io1WvmTRBao5yEG5Kwy_xhFdM-ABC9TkWQ,47
+tskit-1.0.1.dist-info/top_level.txt,sha256=6GsXJYqSCR5Uhb4Js0BBzC0EFXE0FA5ywslsixSbwGM,13
+tskit-1.0.1.dist-info/RECORD,,

{tskit-1.0.0b3.dist-info → tskit-1.0.1.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (80.9.0)
+Generator: setuptools (80.10.2)
 Root-Is-Purelib: false
 Tag: cp313-cp313-win_amd64
 

tskit-1.0.0b3.dist-info/RECORD

@@ -1,27 +0,0 @@
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-tskit/cli.py,sha256=kcWbw-lujEAYT5GQXU2gzcZOW3RHhcegH1D7S1-RNFE,9029
-tskit/combinatorics.py,sha256=tCMk1iJU5kBg-8dd_ZVy_WlTHA4VjYJsFYKUZ3MwHEE,57397
-tskit/drawing.py,sha256=SVG2r0IOne57oEKwLb7rPOhoXpz8v9r6lJmKj7rfeXs,114112
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