Pin to latest msprime/tskit, later scipy

docs/requirements.txt

@@ -5,20 +5,18 @@ matplotlib
 mpmath
 numba
 pandas
-scipy
-six
+scipy>=1.13.0
 stdpopsim==0.2.0
 tsinfer
 tskit
 tqdm
-jupyter-book==0.15.1
-sphinx-issues==3.0.1
-sphinx-argparse==0.4.0
+jupyter-book==1.0.2
+sphinx-issues==4.1.0
+sphinx-argparse==0.5.2
 sphinxcontrib-bibtex
-humanize==4.7.0
-lmdb==1.4.1
-tqdm==4.66.3
+humanize==4.10.0
+tqdm==4.66.4
 daiquiri
-msprime
-ipywidgets==8.1.0
+msprime==1.3.2
+ipywidgets==8.1.3
 sphinx-book-theme #Unpinned to allow easy updating.

requirements.txt

@@ -1,11 +1,11 @@
-tskit>=0.5.0
+tskit>=0.5.8
 tsinfer>=0.3.0
 flake8
 numpy
 tqdm
 daiquiri
-msprime>=1.0.0
-scipy
+msprime>=1.3.2
+scipy>=1.13.0
 numba>=0.58.1
 appdirs
 pre-commit

setup.cfg

@@ -48,8 +48,8 @@ python_requires = >=3.8
 include_package_data = True
 install_requires =
     numpy
-    tskit>=0.5.6
-    scipy>1.2.3
+    tskit>=0.5.8
+    scipy>=1.13.0
     numba>=0.58.1
     mpmath
     tqdm