Update requirements

Author: benjeffery

requirements/CI-docs/requirements.txt

@@ -1,14 +1,14 @@
-jupyter-book==1.0.2
-sphinx-issues==4.1.0
-sphinx-argparse==0.4.0
-humanize==4.10.0
-lmdb==1.5.1
-tqdm==4.66.4
-daiquiri==3.2.5.1
-msprime==1.3.2
+jupyter-book==1.0.4.post1
+sphinx-issues==5.0.0
+sphinx-argparse==0.5.2
+humanize==4.12.1
+lmdb==1.6.2
+tqdm==4.67.1
+daiquiri==3.3.0
+msprime==1.3.3
 sgkit[vcf]==0.9.0
-ipywidgets==8.1.3
+ipywidgets==8.1.5
 Bio==1.7.1
-bio2zarr==0.1.1
+bio2zarr==0.1.4
 sphinx-book-theme #Unpinned to allow easy updating.
 pyfaidx==0.8.1.3

requirements/CI-tests-complete/requirements.txt

@@ -1,15 +1,15 @@
-build==1.2.1
+build==1.2.2.post1
 colorama==0.4.6
 daiquiri==3.2.5.1
-humanize==4.10.0
-lmdb==1.5.1
-matplotlib==3.9.1
-meson==1.5.0
-msprime==1.3.2
-pytest==8.2.2
-pytest-cov==5.0.0
+humanize==4.12.1
+lmdb==1.6.2
+matplotlib==3.9.4
+meson==1.7.0
+msprime==1.3.3
+pytest==8.3.5
+pytest-cov==6.0.0
 seaborn==0.13.2
 sgkit[vcf]==0.9.0
-tskit==0.5.8
-tqdm==4.66.4
-twine==5.1.1
+tskit==0.6.0
+tqdm==4.67.1
+twine==6.1.0

requirements/CI-tests-conda/requirements.txt

@@ -1,10 +1,10 @@
-pytest==8.2.2
-msprime==1.3.2
-humanize==4.10.0
+pytest==8.3.5
+msprime==1.3.3
+humanize==4.12.1
 python-lmdb==1.4.1
-tqdm==4.66.4
-daiquiri==3.0.0
-matplotlib==3.9.1
+tqdm==4.67.1
+daiquiri==3.0.0 # Pinned as conda package not updating
+matplotlib==3.9.4
 seaborn==0.13.2
 colorama==0.4.6
-tskit==0.5.8
+tskit==0.6.0