raise setuptools floor to 61.0.0, sphinx floor to 8.0.0, other small dependencies cleanup (#820)

Contributes to rapidsai/build-planning#146

* updates `setuptools` dependency to `>=61.0.0` ([the first version to support `pyproject.toml`](https://setuptools.pypa.io/en/latest/userguide/pyproject_config.html))
* makes `numpydoc` pins in testing and docs the same
* removes ceiling on `sphinx`, changes `sphinx` dependency to `>=8.0.0` (matching what was recently done across the RAPIDS, e.g. in rapidsai/cuml#6195)
* ensures `numpydoc` makes it into `requirements` output from `rapids-dependency-file-generator`

Authors:
  - James Lamb (https://github.com/jameslamb)

Approvers:
  - https://github.com/jakirkham

URL: #820

Author: jameslamb

conda/environments/all_cuda-118_arch-x86_64.yaml

@@ -25,7 +25,7 @@ dependencies:
 - nbsphinx
 - ninja
 - numpy>=1.23.4,<3.0a0
-- numpydoc>=1.5
+- numpydoc>=1.7
 - nvcc_linux-64=11.8
 - openslide-python>=1.3.0
 - pip
@@ -42,7 +42,7 @@ dependencies:
 - recommonmark
 - scikit-image>=0.19.0,<0.26.0a0
 - scipy>=1.11.2
-- sphinx<6
+- sphinx>=8.0.0
 - sysroot_linux-64==2.28
 - tifffile>=2022.8.12
 - yasm

conda/environments/all_cuda-128_arch-x86_64.yaml

@@ -25,7 +25,7 @@ dependencies:
 - nbsphinx
 - ninja
 - numpy>=1.23.4,<3.0a0
-- numpydoc>=1.5
+- numpydoc>=1.7
 - openslide-python>=1.3.0
 - pip
 - pooch>=1.6.0
@@ -41,7 +41,7 @@ dependencies:
 - recommonmark
 - scikit-image>=0.19.0,<0.26.0a0
 - scipy>=1.11.2
-- sphinx<6
+- sphinx>=8.0.0
 - sysroot_linux-64==2.28
 - tifffile>=2022.8.12
 - yasm

conda/recipes/cucim/meta.yaml

@@ -65,7 +65,7 @@ requirements:
     - rapids-build-backend >=0.3.0,<0.4.0.dev0
     - scikit-image >=0.19.0,<0.25.0a0
     - scipy >=1.6
-    - setuptools >=24.2.0
+    - setuptools >=61.0.0
   run:
     - {{ pin_compatible('cuda-version', max_pin='x', min_pin='x') }}
     {% if cuda_major != "11" %}

dependencies.yaml

@@ -234,12 +234,10 @@ dependencies:
         packages:
           - ipython
           - nbsphinx
-          - numpydoc>=1.5
+          - &numpydoc numpydoc>=1.7
           - pydata-sphinx-theme
           - recommonmark
-          # TODO: sphinx upper version limit can likely be removed after pydata 0.13
-          # is released. See https://github.com/pydata/pydata-sphinx-theme/issues/1094
-          - sphinx<6
+          - sphinx>=8.0.0
   py_version:
     specific:
       - output_types: conda
@@ -264,7 +262,7 @@ dependencies:
       - output_types: [conda, requirements, pyproject]
         packages:
           - rapids-build-backend>=0.3.0,<0.4.0.dev0
-          - setuptools>=24.2.0
+          - setuptools>=61.0.0
   run:
     common:
       - output_types: [conda, requirements, pyproject]
@@ -319,7 +317,6 @@ dependencies:
           - openslide-python>=1.3.0; platform_machine=='x86_64'
           - matplotlib>=3.7
           - opencv-python-headless>=4.6
-      - output_types: [pyproject]
+      - output_types: [pyproject, requirements]
         packages:
-          # Already added to requirements via docs. This is for tests.
-          - numpydoc>=1.7
+          - *numpydoc

python/cucim/pyproject.toml

@@ -5,7 +5,7 @@
 build-backend = "rapids_build_backend.build"
 requires = [
     "rapids-build-backend>=0.3.0,<0.4.0.dev0",
-    "setuptools>=24.2.0",
+    "setuptools>=61.0.0",
 ] # This list was generated by `rapids-dependency-file-generator`. To make changes, edit ../../dependencies.yaml and run `rapids-dependency-file-generator`.
 
 [project]
@@ -80,10 +80,10 @@ developer = [
 docs = [
     "ipython",
     "nbsphinx",
-    "numpydoc>=1.5",
+    "numpydoc>=1.7",
     "pydata-sphinx-theme",
     "recommonmark",
-    "sphinx<6",
+    "sphinx>=8.0.0",
 ] # This list was generated by `rapids-dependency-file-generator`. To make changes, edit ../../dependencies.yaml and run `rapids-dependency-file-generator`.
 
 [project.entry-points."console_scripts"]