build-system/pyproject: Use python-sans-pip-wrapper as default-python.

Also adds python-setuptools and python-wheel to relevant packages,
either to native-inputs or to propagated inputs if the pkg_resources
Python module is loaded at runtime.

* guix/build-system/pyproject.scm (default-python): Default to
python-sans-pip-wrapper.

Change-Id: I2d986c2225114f54459dd6bb360913106e52cdf4

38 files changed, 523 insertions, 229 deletions

diff --git a/gnu/packages/admin.scm b/gnu/packages/admin.scm
index 1060b3c794..e827f800b0 100644
--- a/gnu/packages/admin.scm
+++ b/gnu/packages/admin.scm
@@ -4985,7 +4985,7 @@ elogind's uaccess feature.")
                  (lambda _
                    (substitute* (find-files "tests" "^test.*\\.py$")
                      (("America/Los_Angeles") "PST8PDT")))))))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (propagated-inputs
      (list python-pygments python-ruamel.yaml python-xmltodict))
     (home-page "https://github.com/kellyjonbrazil/jc")
diff --git a/gnu/packages/astronomy.scm b/gnu/packages/astronomy.scm
index 954776f545..ff2fa8a1cc 100644
--- a/gnu/packages/astronomy.scm
+++ b/gnu/packages/astronomy.scm
@@ -912,7 +912,8 @@ astronomical images, especially when there is no WCS information available.")
     (propagated-inputs (list python-astropy python-matplotlib python-numpy
                              python-scikit-learn python-scipy))
     (native-inputs (list python-pytest-astropy-header python-pytest-cov
-                         python-pytest-doctestplus python-pytest-remotedata))
+                         python-pytest-doctestplus python-pytest-remotedata
+                         python-setuptools python-wheel))
     (home-page "https://astroml.org")
     (synopsis "Tools for machine learning and data mining in astronomy")
     (description "This package provides tools for machine learning and data
@@ -1033,7 +1034,8 @@ CFITSIO library.  Among other things, it can
            python-numpy
            python-scipy
            python-supersmoother))
-    (native-inputs (list python-pytest python-nose python-setuptools-scm))
+    (native-inputs (list python-pytest python-nose python-setuptools-scm
+                         python-setuptools python-wheel))
     (home-page "https://github.com/astroml/gatspy")
     (synopsis "General tools for astronomical time series in Python")
     (description
@@ -1768,7 +1770,9 @@ astronomy and astrophysics.")
      (list python-extension-helpers
            python-hypothesis
            python-pytest-astropy
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (propagated-inputs
      (list python-astropy python-numpy))
     (home-page "https://github.com/astropy/astropy-healpix")
@@ -1984,7 +1988,9 @@ to access online Astronomical data.  Each web service has its own sub-package.")
            python-extension-helpers
            python-pytest-astropy
            python-scipy
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (propagated-inputs (list python-astropy python-numpy))
     (home-page "https://github.com/astropy/astroscrappy")
     (synopsis "Speedy Cosmic Ray Annihilation Package in Python")
@@ -2128,7 +2134,10 @@ bad pixel tracking throughout the reduction process.")
            python-pytest-cov
            python-pytest-remotedata
            python-setuptools-scm
-           python-xarray))
+           python-xarray
+           python-xarray
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/MAVENSDC/cdflib")
     (synopsis "Python library to deal with NASA's CDF astronmical data format")
     (description "This package provides a Python @acronym{CDF, Computable
@@ -2236,7 +2245,9 @@ files and provide related services.")
      (list python-astropy
            python-pytest
            python-pytest-cov
-           python-pytest-mypy))
+           python-pytest-mypy
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/poliastro/czml3")
     (synopsis "Python library to write CZML")
     (description
@@ -2297,9 +2308,9 @@ used with local NetDRMS sites.")
               ;; Cython extensions have to be built before running the tests.
               (invoke "python" "setup.py" "build_ext" "--inplace"))))))
     (propagated-inputs
-     (list python-astropy python-numpy))
+     (list python-astropy python-numpy python-setuptools))
     (native-inputs
-     (list python-pytest python-setuptools-scm))
+     (list python-flake8 python-pytest python-setuptools-scm python-wheel))
     (home-page "https://github.com/spacetelescope/drizzle")
     (synopsis
      "Astronomical tool for combining dithered images into a single image")
@@ -2374,7 +2385,8 @@ of dates.")
     (propagated-inputs
      (list python-pydantic-2 python-pydantic-settings python-requests))
     (native-inputs
-     (list python-pytest python-pytest-astropy))
+     (list python-pytest python-pytest-astropy python-setuptools
+                         python-wheel))
     (home-page "https://helioviewer.org/")
     (synopsis "Helioviewer Python API Wrapper")
     (description "@code{hvpy} is a Python API wrapper around the formal
@@ -2395,7 +2407,9 @@ of dates.")
     (native-inputs
      (list python-pytest
            python-pytest-mpl
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (propagated-inputs
      (list python-astropy
            python-matplotlib
@@ -2645,7 +2659,9 @@ Low-Earth Orbit (LEO).")
            python-pytest-xdist
            python-scikit-image
            python-setuptools-scm
-           python-sphinx))
+           python-setuptools
+           python-sphinx
+           python-wheel))
     (home-page "https://poppy-optics.readthedocs.io/")
     (synopsis "Physical Optics Propagation in Python")
     (description
@@ -2703,7 +2719,8 @@ interest, and which require portability between platforms or ease of scripting."
       ;; <https://github.com/astropy/pyvo/issues/547>.
       #:test-flags #~(list "-k" "not test_single_table_description")))
     (native-inputs
-     (list python-pytest-astropy python-requests-mock python-setuptools-scm))
+     (list python-pytest-astropy python-requests-mock python-setuptools-scm
+           python-setuptools python-wheel))
     (propagated-inputs
      (list python-astropy python-pillow python-requests))
     (home-page "https://github.com/astropy/pyvo")
@@ -3242,7 +3259,10 @@ spherical polygons that represent arbitrary regions of the sky.")
               ;; Cython extensions have to be built before running the tests.
               (invoke "python" "setup.py" "build_ext" "--inplace"))))))
     (propagated-inputs (list python-numpy python-scipy))
-    (native-inputs (list python-pytest python-setuptools-scm))
+    (native-inputs (list python-pytest
+                         python-setuptools
+                         python-setuptools-scm
+                         python-wheel))
     (home-page "https://github.com/spacetelescope/stsci.image")
     (synopsis "Image array manipulation functions")
     (description
@@ -3310,7 +3330,11 @@ task}.")
     (propagated-inputs
      (list python-numpy))
     (native-inputs
-     (list python-pytest python-setuptools-scm python-waf))
+     (list python-pytest
+           python-setuptools
+           python-setuptools-scm
+           python-waf
+           python-wheel))
     (home-page "https://stscistimage.readthedocs.io/en/latest/")
     (synopsis "STScI image processing")
     (description
@@ -3356,7 +3380,9 @@ processing functions: @code{xyxymatch}, @code{geomap}.")
            python-pytest
            python-pytest-cov
            python-pytest-doctestplus
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/spacetelescope/stcal")
     (synopsis "STScI tools and algorithms used in calibration pipelines")
     (description "STScI tools and algorithms used in calibration pipelines.")
@@ -4212,7 +4238,9 @@ functions, so that they can be called with scalar or array inputs.")
     (native-inputs
      (list python-cython
            python-pandas
-           python-pytest))
+           python-pytest
+           python-setuptools
+           python-wheel))
     (propagated-inputs
      (list python-h5py
            python-matplotlib
@@ -4337,12 +4365,14 @@ comparison, and validation are provided.")
       (native-inputs
        (list python-pytest
              python-pytest-remotedata
-             python-setuptools-scm))
+             python-setuptools-scm
+             python-wheel))
       (propagated-inputs
        (list python-astropy
              python-beautifulsoup4
              python-numpy
              python-pytest-astropy-header
+             python-setuptools
              python-six))
       (home-page "https://github.com/spacetelescope/pysynphot")
       (synopsis "Python Synthetic Photometry Utilities")
@@ -4420,7 +4450,9 @@ object.")
     (native-inputs
      (list python-pytest
            python-pytest-astropy
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/spacetelescope/synphot_refactor")
     (synopsis "Synthetic photometry using Astropy")
     (description
@@ -4498,7 +4530,9 @@ support for reading and writing various compression algorithms including:
                          python-pypa-build
                          python-pytest
                          python-packaging
-                         python-setuptools-scm))
+                         python-setuptools-scm
+                         python-setuptools
+                         python-wheel))
     (propagated-inputs (list python-importlib-resources))
     (home-page "https://asdf-standard.readthedocs.io/")
     (synopsis "ASDF standard schemas")
@@ -4526,7 +4560,7 @@ up-front for extensibility.")
     (arguments
      ;; Dependency cycle with python-asdf
      (list #:tests? #f))
-    (native-inputs (list python-setuptools-scm))
+    (native-inputs (list python-setuptools-scm python-setuptools python-wheel))
     (propagated-inputs (list python-asdf-standard python-importlib-resources))
     (home-page "https://github.com/asdf-format/asdf-transform-schemas")
     (synopsis "ASDF schemas for transforms")
@@ -4651,7 +4685,7 @@ install an implementation package such as asdf-astropy.")
     (arguments
      ;; Dependency cycle with python-asdf
      (list #:tests? #f))
-    (native-inputs (list python-setuptools-scm))
+    (native-inputs (list python-setuptools-scm python-setuptools python-wheel))
     (propagated-inputs (list python-asdf-standard python-importlib-resources))
     (home-page "https://asdf-unit-schemas.readthedocs.io/")
     (synopsis "ASDF serialization schemas for the units defined by @code{astropy.units}")
@@ -5015,9 +5049,10 @@ between image and reference catalogs. Currently only aligning images with
                (base32
                 "15kq7z30m9i286ncs9xvpaq3dq1p5fa47jz21prq146qwr7j6dm8"))))
     (build-system pyproject-build-system)
-    (propagated-inputs (list python-numpy python-scipy))
+    (propagated-inputs (list python-numpy python-scipy python-setuptools))
     (native-inputs (list python-codecov python-pytest python-pytest-cov
-                         python-pytest-doctestplus python-setuptools-scm))
+                         python-pytest-doctestplus python-setuptools-scm
+                         python-wheel))
     (home-page "https://github.com/spacetelescope/wiimatch")
     (synopsis
      "Optimal matching of weighted N-dimensional image intensity data")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 8e497f1199..236bab79e3 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -1763,7 +1763,8 @@ intended to behave exactly the same as the original BWK awk.")
                (base32
                 "1pm1szyxabhn8jismrj9cjhf88ajgcmm39f0cgf36iagw5qakprl"))))
     (build-system pyproject-build-system)
-    (propagated-inputs (list python-biopython python-six))
+    (propagated-inputs (list python-biopython python-six python-setuptools
+                             python-wheel))
     (native-inputs (list python-pytest))
     (home-page "https://github.com/chapmanb/bcbb/tree/master/gff")
     (synopsis "Read and write GFF files with Biopython integration")
@@ -1888,7 +1889,7 @@ from bokeh.util.dataclasses import entries\n"))
                                python-tornado-6
                                python-tqdm
                                python-umap-learn))
-      (native-inputs (list python-pytest))
+      (native-inputs (list python-pytest python-setuptools python-wheel))
       (home-page "https://github.com/LooseLab/bulkVis")
       (synopsis "Interactive visualization of bulk RNA-seq data")
       (description
@@ -2219,7 +2220,8 @@ biological activities from omics data within a unified framework.")
            python-scikit-learn
            python-scipy
            python-seaborn))
-    (native-inputs (list python-cython python-setuptools-scm))
+    (native-inputs (list python-cython python-setuptools-scm
+                         python-setuptools python-wheel))
     (home-page "https://github.com/lilab-bcb/demuxEM")
     (synopsis "Analyze cell-hashing/nucleus-hashing data")
     (description
@@ -2292,6 +2294,7 @@ from single-cell RNA-sequencing.")
            python-numpy
            python-pandas
            python-scipy))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/SegataLab/hclust2/")
     (synopsis "Plotting heat-maps for publications")
     (description
@@ -2311,7 +2314,7 @@ to produce high quality figures that can be used in publications.")
               "111q4pzkav26aa3hkgh948wqlyrq7dq6sjml9z63n3blw8s6b0c4"))))
    (build-system pyproject-build-system)
    (native-inputs
-    (list python-setuptools-scm))
+    (list python-setuptools-scm python-setuptools python-wheel))
    (propagated-inputs
     (list python-humanize python-requests python-six))
    (home-page "https://pypi.org/project/htsget/")
@@ -2411,6 +2414,7 @@ framework enables the use of any LR method with any resources.")
     (build-system pyproject-build-system)
     (propagated-inputs
      (list python-matplotlib python-numpy python-pandas))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://logomaker.readthedocs.io")
     (synopsis "Package for making Sequence Logos")
     (description "Logomaker is a Python package for generating
@@ -2645,7 +2649,8 @@ three prime UTR.")
            python-pillow
            python-scipy
            python-zarr))
-    (native-inputs (list python-cython python-setuptools-scm))
+    (native-inputs (list python-cython python-setuptools-scm
+                         python-setuptools python-wheel))
     (home-page "https://github.com/lilab-bcb/pegasusio")
     (synopsis "Read or write single-cell genomics data")
     (description
@@ -2704,7 +2709,7 @@ weight.astype(\"str\") + '\\n')")))))))
            python-scikit-learn
            python-scipy))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/dpeerlab/PhenoGraph.git")
     (synopsis "Graph-based clustering for high-dimensional single-cell data")
     (description
@@ -2735,6 +2740,7 @@ similarities between cells and then identifying communities in this graph.")
            python-numpy
            python-pandas
            python-seaborn))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/biobakery/phylophlan")
     (synopsis
      "Phylogenetic analysis of microbial isolates and genomes from metagenomes")
@@ -2814,6 +2820,8 @@ phylogenetic markers, and can also scale to very large phylogenies comprising
            python-cython
            kentutils ; for bedGraphToBigWig
            python-six
+           python-setuptools
+           python-wheel
            ;; For the test suite.
            python-pytest
            python-psutil))
@@ -3194,6 +3202,7 @@ alignments and perform the following operations:
     (build-system pyproject-build-system)
     (arguments (list #:tests? #false))  ;there are none
     (propagated-inputs (list python-pandas))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/alexomics/read-paf")
     (synopsis "Minimap2 PAF file reader")
     (description
@@ -3306,6 +3315,7 @@ sequencing.")
            (lambda _ (setenv "HOME" "/tmp"))))))
     (propagated-inputs
      (list python-numpy))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://biopython.org/")
     (synopsis "Tools for biological computation in Python")
     (description
@@ -4364,7 +4374,8 @@ off-target reads for a capture method that targets CpG-rich region.")
     (inputs
      (list zlib))
     (native-inputs
-     (list python-cython python-lzo python-pytest))
+     (list python-cython python-lzo python-pytest python-setuptools
+           python-wheel))
     (home-page "https://github.com/bxlab/bx-python")
     (synopsis "Tools for manipulating biological data")
     (description
@@ -4494,6 +4505,8 @@ omics data.")
     (native-inputs
      (list python-cython
            python-pytest
+           python-setuptools
+           python-wheel
            ;; Dependencies below are are for tests only.
            samtools
            bcftools))
@@ -4587,6 +4600,8 @@ UCSC genome browser.")
     (native-inputs
      `(("python-cython" ,python-cython)
        ("python-pytest" ,python-pytest)
+       ("python-setuptools" ,python-setuptools)
+       ("python-wheel" ,python-wheel)
        ("test-data"
         ,(origin
            (method url-fetch)
@@ -4914,7 +4929,8 @@ file formats including SAM/BAM, Wiggle/BigWig, BED, GFF/GTF, VCF.")
     (arguments
      (list #:tests? #false)) ;there are none
     (native-inputs
-     (list python-cython python-pytest python-setuptools-scm))
+     (list python-cython python-pytest python-setuptools-scm
+           python-setuptools python-wheel))
     (propagated-inputs
      (list python-xopen))
     (home-page "https://github.com/marcelm/dnaio/")
@@ -5266,6 +5282,7 @@ gkm-SVM.")
      (list python-numpy))
     (inputs
      (list libbigwig zlib curl))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/dpryan79/pyBigWig")
     (synopsis "Access bigWig files in Python using libBigWig")
     (description
@@ -5391,9 +5408,12 @@ Note that this package has been deprecated in favor of @code{pyfaidx}.")
            python-mypy-extensions
            python-rdflib
            python-requests
-           python-ruamel.yaml))
+           python-ruamel.yaml
+           python-setuptools ; For pkg_resources.
+           python-typing-extensions))
     (native-inputs
-     (list python-black python-pytest python-pytest-runner python-pytest-xdist))
+     (list python-black python-pytest python-pytest-runner
+           python-wheel))
     (home-page "https://github.com/common-workflow-language/schema_salad")
     (synopsis "Schema Annotations for Linked Avro Data (SALAD)")
     (description
@@ -5477,6 +5497,7 @@ resources for bioinformatics.")
            python-scikit-learn
            python-scipy
            python-umap-learn))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/swolock/scrublet")
     (synopsis "Tool to indentify and remove doublets in single-cell data")
     (description "This package provides a tool for identifying and removing
@@ -5642,6 +5663,7 @@ documents.")
            python-requests
            python-ruamel.yaml
            python-schema-salad
+           python-setuptools ; For pkg_resources.
            python-shellescape
            python-spython
            python-typing-extensions
@@ -5655,7 +5677,7 @@ documents.")
            python-pytest-cov
            python-pytest-mock
            python-pytest-runner
-           python-pytest-xdist))
+           python-wheel))
     (home-page
      "https://github.com/common-workflow-language/common-workflow-language")
     (synopsis "Common Workflow Language reference implementation")
@@ -5709,7 +5731,8 @@ CWL descriptions.")
               (substitute* "tests/test_datamodel_taxon.py"
                 (("collections.Iterable")
                  "collections.abc.Iterable")))))))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-wheel))
+    (propagated-inputs (list python-setuptools))
     (home-page "https://dendropy.org/")
     (synopsis "Library for phylogenetics and phylogenetic computing")
     (description
@@ -6531,7 +6554,8 @@ multiple DJU methods.")
                (base32
                 "0cjpzyqz6r4lmiwry2gcxdczwpkhl3lyyjg4s8addln17691ysxk"))))
     (build-system pyproject-build-system)
-    (propagated-inputs (list python-pytest))
+    (propagated-inputs (list python-pytest python-setuptools))
+    (native-inputs (list python-wheel))
     (home-page "https://github.com/betteridiot/bamnostic/")
     (synopsis "Tool for binary alignment map, random access and parsing")
     (description
@@ -6629,7 +6653,7 @@ analysis tool Scanpy (Genome Biology, 2018).")
            python-pyqt
            python-scipy))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (home-page "http://etetoolkit.org")
     (synopsis "Python environment for phylogenetic tree exploration")
     (description
@@ -6650,6 +6674,7 @@ exploration.")
     (build-system pyproject-build-system)
     (arguments (list #:tests? #false))  ;there are none
     (propagated-inputs (list python-matplotlib python-numpy python-levenshtein))
+    (native-inputs (list python-setuptools python-wheel python-pip))
     (home-page "https://github.com/meren/illumina-utils")
     (synopsis "Library and scripts to work with Illumina paired-end data")
     (description
@@ -6673,6 +6698,7 @@ Illumina paired-end data (for CASAVA 1.8+).")
     (propagated-inputs
      (list python-biopython python-matplotlib python-pandas
            python-scipy python-seaborn))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://widdowquinn.github.io/pyani/")
     (synopsis "Calculate genome-scale average nucleotide identity")
     (description
@@ -10347,7 +10373,9 @@ complexity samples.")
     (build-system pyproject-build-system)
     (native-inputs
      (list python-pytest-cov
-           python-pytest-runner))
+           python-pytest-runner
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/dib-lab/screed/")
     (synopsis "Short read sequence database utilities")
     (description "Screed parses FASTA and FASTQ files and generates databases.
@@ -10689,7 +10717,7 @@ bioinformatics file formats, sequence alignment, and more.")
     (inputs
      (list python-biopython python-pygtrie))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/fhcrc/seqmagick")
     (synopsis "Tools for converting and modifying sequence files")
     (description
@@ -13799,10 +13827,12 @@ replacement for strverscmp.")
            python-requests
            python-rich
            python-rich-click
+           python-setuptools ; For pkg_resources.
            python-simplejson
            python-spectra))
     (native-inputs
      `(("python-pytest" ,python-pytest)
+       ("python-wheel" ,python-wheel)
        ("tests"
         ,(let ((commit "c3e7400affe3f3ca996973805797af61b93070ba"))
            (origin
@@ -15537,9 +15567,10 @@ using the same syntax.")
                              python-pydot
                              python-requests
                              python-scipy
+                             python-setuptools
                              python-statsmodels
                              python-xlsxwriter))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-wheel))
     (home-page "https://github.com/tanghaibao/goatools")
     (synopsis "Python scripts to find enrichment of GO terms")
     (description "Python scripts to find enrichment of GO terms.  In addition,
@@ -15655,9 +15686,10 @@ API services.")
            python-pysam
            python-regex
            python-ruamel.yaml
+           python-setuptools
            snakemake))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-wheel))
     (home-page "https://github.com/caleblareau/mgatk")
     (synopsis "Mitochondrial genome analysis toolkit.")
     (description "This package is a Python-based command line interface for
@@ -17892,6 +17924,7 @@ implementation differs in these ways:
            python-patsy
            python-scikit-learn
            python-scipy
+           python-setuptools ; For pkg_resources.
            python-seaborn
            python-session-info
            python-sinfo
@@ -18284,7 +18317,9 @@ bgzipped text file that contains a pair of genomic coordinates per line.")
            python-mock
            python-numpy
            python-pytest
-           python-pytest-cov))
+           python-pytest-cov
+           python-wheel))
+    (propagated-inputs (list python-setuptools))
     (home-page "http://mattshirley.com")
     (synopsis "Random access to fasta subsequences")
     (description
@@ -18406,7 +18441,7 @@ includes operations like compartment, insulation or peak calling.")
            python-scipy
            python-tables))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/deeptools/HiCMatrix/")
     (synopsis "HiCMatrix class for HiCExplorer and pyGenomeTracks")
     (description
@@ -19266,6 +19301,7 @@ polymorphisms) and indels with respect to a reference genome and more.")
            ;; R packages
            r-dnacopy))
     (inputs (list r-minimal)) ;for tests
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://cnvkit.readthedocs.org/")
     (synopsis "Copy number variant detection from targeted DNA sequencing")
     (description
@@ -21492,7 +21528,9 @@ coordinates between different assemblies.")
      (list python-pytest
            lsof
            inetutils
-           openssl))
+           openssl
+           python-setuptools
+           python-wheel))
     (inputs (list time))
     (propagated-inputs
      (list python-apsw
@@ -21996,6 +22034,7 @@ feature is fast retrieval of range queries into numpy arrays.")
      (list python-biopython
            python-matplotlib
            python-packaging))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page
      "https://github.com/Edinburgh-Genome-Foundry/DnaFeaturesViewer")
     (synopsis "Plot features from DNA sequences")
diff --git a/gnu/packages/bootloaders.scm b/gnu/packages/bootloaders.scm
index 503c7d4a19..d40d54a28f 100644
--- a/gnu/packages/bootloaders.scm
+++ b/gnu/packages/bootloaders.scm
@@ -72,6 +72,7 @@
   #:use-module (gnu packages valgrind)
   #:use-module (gnu packages virtualization)
   #:use-module (gnu packages xorg)
+  #:use-module (gnu packages python-build)
   #:use-module (gnu packages python-web)
   #:use-module (gnu packages python-xyz)
   #:use-module (guix build-system gnu)
@@ -751,6 +752,8 @@ tree binary files.  These are board description files used by Linux and BSD.")
            pkg-config                   ;for 'make menuconfig'
            python
            python-pyelftools
+           python-setuptools
+           python-wheel
            swig
            (list util-linux "lib")))
     (home-page "https://www.denx.de/wiki/U-Boot/")
diff --git a/gnu/packages/check.scm b/gnu/packages/check.scm
index 550a5d0f1d..67c8ecbe93 100644
--- a/gnu/packages/check.scm
+++ b/gnu/packages/check.scm
@@ -885,7 +885,7 @@ has been designed to be fast, light and unintrusive.")
                  (base32
                   "0gymjcnvjx9snyrzdbmjnk93ibb161q72xam29vnl3yyac4r1330"))))
       (build-system pyproject-build-system)
-      (native-inputs (list python-nose))
+      (native-inputs (list python-nose python-setuptools python-wheel))
       (propagated-inputs
        (list python-cached-property python-configargparse
              python-jinja2 python-six
@@ -1861,7 +1861,8 @@ timeout has been exceeded.")
      ;; 'hypothesis' plugin is not in the environment (due to
      ;; <http://issues.guix.gnu.org/25235>), which would cause the test suite
      ;; to fail (see: https://github.com/pytest-dev/pytest-forked/issues/54).
-     (list python-pytest-bootstrap python-setuptools-scm))
+     (list python-pytest-bootstrap python-setuptools
+           python-setuptools-scm python-wheel))
     (home-page "https://github.com/pytest-dev/pytest-forked")
     (synopsis "Pytest plugin to run tests in isolated forked subprocesses")
     (description "This package provides a Pytest plugin which enables running
@@ -2186,7 +2187,7 @@ executed.")
                  (lambda _
                    (setenv "SETUPTOOLS_SCM_PRETEND_VERSION"
                            #$(package-version this-package)))))))
-    (native-inputs (list python-setuptools-scm))
+    (native-inputs (list python-setuptools-scm python-setuptools python-wheel))
     (propagated-inputs (list python-pytest))
     (home-page "https://github.com/pytest-dev/pytest-asyncio")
     (synopsis "Pytest support for asyncio")
@@ -2623,7 +2624,9 @@ a Pytest test execution.")
                              python-mypy
                              python-pytest
                              python-pyyaml
+                             python-setuptools
                              python-regex))
+    (native-inputs (list python-wheel))
     (home-page "https://github.com/TypedDjango/pytest-mypy-plugins")
     (synopsis "Pytest plugin for writing tests for mypy plugins")
     (description "This package provides a pytest plugin for writing tests for
diff --git a/gnu/packages/databases.scm b/gnu/packages/databases.scm
index d9926701f5..23329b9bb0 100644
--- a/gnu/packages/databases.scm
+++ b/gnu/packages/databases.scm
@@ -3155,6 +3155,7 @@ protocol with Cython for performance.")
     (build-system pyproject-build-system)
     (arguments '(#:tests? #f))           ;test suite requires docker
     (propagated-inputs (list python-pymysql))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/aio-libs/aiomysql")
     (synopsis "MySQL driver for Python")
     (description "@code{aiomysql} is a driver for accessing a MySQL database
@@ -3596,7 +3597,8 @@ on localhost.")
     (build-system pyproject-build-system)
     (native-inputs
      (list python-cython ; for C extensions
-           python-pytest python-mock python-pytest-xdist)) ; for tests
+           python-pytest python-mock python-pytest-xdist ; for tests
+           python-setuptools python-wheel))
     (propagated-inputs
      (list python-greenlet))
     (arguments
@@ -3841,7 +3843,7 @@ text search extension.")
     (propagated-inputs (list python-click python-click-default-group
                              python-dateutil python-sqlite-fts4
                              python-tabulate))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/simonw/sqlite-utils")
     (synopsis
      "CLI tool and Python utility functions for manipulating SQLite databases")
@@ -3914,7 +3916,7 @@ PickleShare.")
          "10yfbasi4mq63g0svyl1h49ylwn9znjylq78id16dzxzk9q9ipdx"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list unzip))
+     (list unzip python-setuptools python-wheel))
     (inputs (list sqlite-next))         ;SQLite 3.45.1 required.
     (arguments
      (list
@@ -4269,7 +4271,7 @@ for Python.  The design goals are:
                             ;; The fix was forwarded upstream, see:
                             ;; https://github.com/redis/hiredis-py/pull/160.
                             (delete-file "tests/__init__.py"))))))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (inputs (list hiredis))
     (home-page "https://github.com/redis/hiredis-py")
     (synopsis "Python extension that wraps protocol parsing code in hiredis")
@@ -4361,6 +4363,8 @@ reasonable substitute.")
      (list python-pytest
            python-pytest-asyncio
            python-pytest-timeout
+           python-setuptools
+           python-wheel
            redis))
     (propagated-inputs
      (list python-async-timeout))
diff --git a/gnu/packages/digest.scm b/gnu/packages/digest.scm
index 481771804b..e478f43b77 100644
--- a/gnu/packages/digest.scm
+++ b/gnu/packages/digest.scm
@@ -123,7 +123,7 @@ platforms (both big and little endian).")
          "1hdxcscry59gh0znlm71ya23mm9rfmvz8lvvlplzxzf63pib28dc"))))
     (build-system pyproject-build-system)
     ;; Needed to embed the correct version string
-    (native-inputs (list python-setuptools-scm))
+    (native-inputs (list python-setuptools-scm python-setuptools python-wheel))
     (home-page "https://github.com/ifduyue/python-xxhash")
     (synopsis "Python binding for xxHash")
     (description "This package provides Python bindings for the xxHash hash
diff --git a/gnu/packages/engineering.scm b/gnu/packages/engineering.scm
index fcb73eab12..40123c6e50 100644
--- a/gnu/packages/engineering.scm
+++ b/gnu/packages/engineering.scm
@@ -2616,7 +2616,7 @@ specification can be downloaded at @url{http://3mf.io/specification/}.")
                             (substitute* "pyvisa/shell.py"
                               (("from .thirdparty import prettytable")
                                "import prettytable")))))))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (propagated-inputs (list python-dataclasses python-prettytable
                              python-typing-extensions))
     (home-page "https://pyvisa.readthedocs.io/en/latest/")
diff --git a/gnu/packages/fontutils.scm b/gnu/packages/fontutils.scm
index f82b7d1bf9..760e586cb8 100644
--- a/gnu/packages/fontutils.scm
+++ b/gnu/packages/fontutils.scm
@@ -530,7 +530,8 @@ converts any cubic curves to quadratic.  The most useful function is probably
        (sha256
         (base32 "1rg2997af8blvswlwif0kpz2vxrlh555gzqslz6yv9y7i7v8lphl"))))
     (build-system pyproject-build-system)
-    (native-inputs (list python-pytest python-setuptools-scm))
+    (native-inputs (list python-pytest python-setuptools-scm
+                         python-setuptools python-wheel))
     (propagated-inputs
      (list python-booleanoperations
            python-cffsubr
@@ -677,7 +678,8 @@ process.  FontParts is the successor of RoboFab.")
                        "--ignore=tests/builder/interpolation_test.py")))
     (native-inputs
      (list python-setuptools-scm
-
+           python-setuptools
+           python-wheel
            ;; For tests.
            python-pytest
            python-xmldiff))
@@ -857,6 +859,7 @@ suite of the @code{psautohint} package.")
            python-pytest-cov
            python-pytest-xdist
            python-setuptools-scm
+           python-setuptools
            python-wheel))
     (home-page "https://github.com/adobe-type-tools/psautohint")
     (synopsis "Adobe's PostScript autohinter")
@@ -1780,7 +1783,7 @@ with @samp{nameIDs}.")
         (base32 "0yx4i8q5rfyqhr2fj70a7z1bp1jv7bdlr64ww9z4nv9ycbda4x9j"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-pytest python-setuptools-scm))
+     (list python-pytest python-setuptools-scm python-setuptools python-wheel))
     (propagated-inputs (list python-attrs python-fonttools))
     (home-page "https://github.com/fonttools/ufoLib2")
     (synopsis "Unified Font Object (UFO) font processing library")
diff --git a/gnu/packages/geo.scm b/gnu/packages/geo.scm
index 1146939408..dbc2f73034 100644
--- a/gnu/packages/geo.scm
+++ b/gnu/packages/geo.scm
@@ -359,7 +359,9 @@ subdivisions.")
            python-numpy
            python-pytest
            python-scikit-build
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (inputs (list h3))
     (home-page "https://uber.github.io/h3-py")
     (synopsis "Python bindings for H3")
@@ -1012,7 +1014,7 @@ pyproj, Rtree, and Shapely.")
       (list python-fiona python-packaging python-pandas python-pyproj
             python-shapely))
     (native-inputs
-      (list python-pytest))
+      (list python-pytest python-setuptools python-wheel))
     (home-page "https://geopandas.org")
     (synopsis "Geographic pandas extensions")
     (description "The goal of GeoPandas is to make working with
@@ -1141,7 +1143,7 @@ during conversion.")
                              python-pandas
                              python-requests
                              python-shapely))
-    (native-inputs (list python-hatchling python-pytest))
+    (native-inputs (list python-hatchling python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/gboeing/osmnx")
     (synopsis
      "Retrieve, model, analyze, and visualize OpenStreetMap street networks")
@@ -2101,7 +2103,7 @@ from multiple records.")
                   (string-append  "\"" libspatialindex
                                   "/lib/libspatialindex_c.so\"")))))))))
     (native-inputs
-     (list python-numpy python-pytest python-wheel))
+     (list python-numpy python-pytest python-setuptools python-wheel))
     (inputs
      (list libspatialindex))
     (home-page "https://github.com/Toblerity/rtree")
diff --git a/gnu/packages/graph.scm b/gnu/packages/graph.scm
index 115fe20b52..6fe53171f1 100644
--- a/gnu/packages/graph.scm
+++ b/gnu/packages/graph.scm
@@ -249,7 +249,7 @@ more.")
                                   (string-append igraph "/lib")))))))))))
       (inputs (list igraph))
       (propagated-inputs (list python-texttable))
-      (native-inputs (list python-pytest))
+      (native-inputs (list python-pytest python-setuptools python-wheel))
       (home-page "https://igraph.org/python/")
       (synopsis "Python bindings for the igraph network analysis library"))))
 
@@ -417,11 +417,12 @@ algorithm for community detection in large networks.")
                (("self.use_pkgconfig = False")
                 "self.use_pkgconfig = True")))))))
     (inputs (list igraph))
-    (propagated-inputs (list python-igraph))
+    (propagated-inputs (list python-igraph python-setuptools))
     (native-inputs
      (list pkg-config
            python-ddt
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-wheel))
     (home-page "https://github.com/vtraag/louvain")
     (synopsis "Community detection in large networks")
     (description
diff --git a/gnu/packages/graphviz.scm b/gnu/packages/graphviz.scm
index 18f4fc147d..67cee5a4ef 100644
--- a/gnu/packages/graphviz.scm
+++ b/gnu/packages/graphviz.scm
@@ -160,7 +160,9 @@ interfaces for other technical domains.")
            python-mock
            python-pytest
            python-pytest-cov
-           python-pytest-mock))
+           python-pytest-mock
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/xflr6/graphviz")
     (synopsis "Simple Python interface for Graphviz")
     (description
diff --git a/gnu/packages/license.scm b/gnu/packages/license.scm
index c562f70498..020f36b015 100644
--- a/gnu/packages/license.scm
+++ b/gnu/packages/license.scm
@@ -188,12 +188,13 @@ belonging to various licenses.")
                         (add-before 'check 'chdir
                           (lambda _
                             (chdir "/tmp"))))))
-    (native-inputs (list python-poetry-core python-pytest))
+    (native-inputs (list python-poetry-core python-pytest python-wheel))
     (inputs (list python-binaryornot
                   python-boolean.py
                   python-debian
                   python-jinja2
-                  python-license-expression))
+                  python-license-expression
+                  python-setuptools)) ; For pkg_resources.
     (home-page "https://reuse.software/")
     (synopsis "Provide and verify copyright and licensing information")
     (description
diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm
index 6eaf74e087..a14655e5c0 100644
--- a/gnu/packages/machine-learning.scm
+++ b/gnu/packages/machine-learning.scm
@@ -1038,7 +1038,7 @@ and not test_wmt22_references")
                              python-portalocker
                              python-regex
                              python-tabulate))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/mjpost/sacrebleu")
     (synopsis
      "Compute shareable, comparable, and reproducible BLEU, chrF, and TER scores")
@@ -1079,7 +1079,7 @@ unsupervised text tokenizer.")
     (build-system pyproject-build-system)
     ;; This package depends on spacy, which depends on this package.
     (arguments (list #:tests? #false))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://spacy.io")
     (synopsis "Legacy registered functions for spaCy backwards compatibility")
     (description
@@ -1100,7 +1100,7 @@ compatibility.")
     (build-system pyproject-build-system)
     ;; This package depends on spacy, which depends on this package.
     (arguments (list #:tests? #false))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/explosion/spacy-loggers")
     (synopsis "Logging utilities for SpaCy")
     (description "This package provides logging utilities for the SpaCy
@@ -1952,6 +1952,8 @@ for scientific computing and data science (e.g. BLAS and OpenMP).")
                          python-pandas
                          python-pytest
                          python-pytest-cov
+                         python-setuptools
+                         python-wheel
                          tensorflow))
     (home-page "https://github.com/scikit-learn-contrib/imbalanced-learn")
     (synopsis "Toolbox for imbalanced dataset in machine learning")
@@ -2132,7 +2134,9 @@ standard feature selection algorithms.")
      (list python-pytest
            python-pytest-lazy-fixture
            python-pytorch
-           python-torchvision))
+           python-torchvision
+           python-setuptools
+           python-wheel))
     (home-page "https://cleanlab.ai")
     (synopsis "Automatically find and fix dataset issues")
     (description
@@ -2164,7 +2168,7 @@ data by providing clean labels during training.")
            python-scipy
            python-tqdm))
     (native-inputs
-     (list python-pytest))))
+     (list python-pytest python-setuptools python-wheel))))
 
 (define-public python-cma
   (package
@@ -2205,7 +2209,7 @@ and a few related numerical optimization tools.")
         (base32 "17bk60mhkglz6s7wz6xcyhw1h4mvghc1iid0805dra7jdyafwrfn"))
        (file-name (git-file-name name version))))
     (build-system pyproject-build-system)
-    (native-inputs (list python-hypothesis))
+    (native-inputs (list python-hypothesis python-setuptools python-wheel))
     (propagated-inputs (list python-numpy))
     (home-page "https://github.com/CyberAgentAILab/cmaes")
     (synopsis "CMA-ES implementation for Python")
@@ -2371,13 +2375,15 @@ interactive learning.")
            python-networkx
            python-numpy
            python-scipy
+           python-setuptools ; For pkg_resources.
            python-six
            python-tqdm))
     (native-inputs
      (list python-black
            python-nose
            python-pymongo
-           python-pytest))
+           python-pytest
+           python-wheel))
     (home-page "https://hyperopt.github.io/hyperopt/")
     (synopsis "Library for hyperparameter optimization")
     (description "Hyperopt is a Python library for serial and parallel
@@ -3945,7 +3951,8 @@ These include a barrier, broadcast, and allreduce.")
          ;; nor is examples/plot_quantum.py
          " and not test_file_is_generated"))))
     (propagated-inputs (list python-jsmin python-numpy python-scipy))
-    (native-inputs (list python-pytest python-pytest-cov python-sphinx))
+    (native-inputs (list python-pytest python-pytest-cov python-sphinx
+                         python-setuptools python-wheel))
     (home-page "https://github.com/tensorly/tensorly")
     (synopsis "Tensor learning in Python")
     (description
@@ -5015,6 +5022,7 @@ as torchvision, torchtext, and others.")
            (lambda _
              (delete-file "readchar/_win_read.py"))))))
     (propagated-inputs (list python-setuptools))
+    (native-inputs (list python-wheel))
     (home-page "https://github.com/magmax/python-readchar")
     (synopsis "Library to easily read single chars and key strokes")
     (description "This package provides a Python library to easily read single
@@ -5253,7 +5261,7 @@ implementations and an easy-to-use API to create custom metrics.  It offers:
            python-pillow-simd
            python-pytorch))
     (native-inputs
-     (list which python-pytest))
+     (list which python-pytest python-setuptools python-wheel))
     (home-page "https://pytorch.org/vision/stable/index.html")
     (synopsis "Datasets, transforms and models specific to computer vision")
     (description
@@ -5907,7 +5915,7 @@ fi"
                              ;; Required by codegen.
                              python-setuptools
                              python-sympy))
-    (native-inputs (list python-pytest python-pytest-xdist))
+    (native-inputs (list python-pytest python-pytest-xdist python-wheel))
     (home-page "https://briansimulator.org/")
     (synopsis "Clock-driven simulator for spiking neural networks")
     (description
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index de8e886485..8867f1f132 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -5364,7 +5364,8 @@ access to BLIS implementations via traditional BLAS routine calls.")
              (invoke "python" "setup.py" "build_ext" "--inplace"
                      "-j" (number->string (parallel-job-count))))))))
     (propagated-inputs (list python-numpy))
-    (native-inputs (list python-cython python-pytest))
+    (native-inputs (list python-cython python-pytest
+                         python-setuptools python-wheel))
     (home-page "https://github.com/explosion/cython-blis")
     (synopsis "Blis as a self-contained C-extension for Python")
     (description
diff --git a/gnu/packages/monitoring.scm b/gnu/packages/monitoring.scm
index ad9af078eb..7d1beb5c49 100644
--- a/gnu/packages/monitoring.scm
+++ b/gnu/packages/monitoring.scm
@@ -326,7 +326,7 @@ solution (server-side)")))
                                      (string-append #$output "/share/doc/"
                                                     #$name "/html")))))))
     (native-inputs
-     (list python-pytest python-sphinx))
+     (list python-pytest python-sphinx python-setuptools python-wheel))
     (inputs
      (list ncurses python-requests))
     (home-page "https://github.com/unioslo/zabbix-cli")
diff --git a/gnu/packages/package-management.scm b/gnu/packages/package-management.scm
index 40747686c4..3d2fdcce78 100644
--- a/gnu/packages/package-management.scm
+++ b/gnu/packages/package-management.scm
@@ -1100,7 +1100,8 @@ and not test_conda_root_outside_root_environment"))
          (add-before 'check 'set-HOME
            (lambda _ (setenv "HOME" "/tmp"))))))
     (propagated-inputs
-     (list python-clyent python-nbformat python-pyyaml python-requests))
+     (list python-clyent python-nbformat python-pyyaml python-requests
+           python-setuptools))
     (native-inputs
      (list python-coverage
            python-dateutil
@@ -1108,7 +1109,8 @@ and not test_conda_root_outside_root_environment"))
            python-mock
            python-pillow
            python-pytest
-           python-pytz))
+           python-pytz
+           python-wheel))
     (home-page "https://github.com/Anaconda-Platform/anaconda-client")
     (synopsis "Anaconda Cloud command line client library")
     (description
diff --git a/gnu/packages/potassco.scm b/gnu/packages/potassco.scm
index b7cfca2eec..891738ee0c 100644
--- a/gnu/packages/potassco.scm
+++ b/gnu/packages/potassco.scm
@@ -470,7 +470,7 @@ directly from the python command line.")))
                      (("self\\.assertTrue\\(os_called\\)" all)
                       (string-append "# " all))))))))
     (propagated-inputs (list python-clingo))
-    (native-inputs (list python-typing-extensions))
+    (native-inputs (list python-typing-extensions python-setuptools python-wheel))
     (home-page "https://potassco.org")
     (synopsis "Object relational mapping to clingo")
     (description "@acronym{Clorm, Clingo ORM} provides an @acronym{ORM,
@@ -532,6 +532,7 @@ the most probable model as well as finding all models and their probabilities.")
                 "1q6hlh4b5hsa4n5agvmfa9rhsxfd2g6kpl4b9kfccwbmf6dh51k6"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-clingo))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://potassco.org/")
     (synopsis "Solve dynamic temporal logic programs")
     (description "This package provides a system to solve dynamic temporal
@@ -559,8 +560,10 @@ logic programs based on clingo.")
                              python-imageio
                              python-jinja2
                              python-jsonschema
-                             python-networkx))
-    (native-inputs (list dot2tex graphviz python-pylint python-pytest))
+                             python-networkx
+                             python-setuptools))
+    (native-inputs (list dot2tex graphviz python-pylint python-pytest
+                         python-wheel))
     (home-page "https://github.com/potassco/clingraph")
     (synopsis "Visualizer for graphs defined as logic programs")
     (description
diff --git a/gnu/packages/protobuf.scm b/gnu/packages/protobuf.scm
index d47b67fa61..8ca730df3c 100644
--- a/gnu/packages/protobuf.scm
+++ b/gnu/packages/protobuf.scm
@@ -385,7 +385,9 @@ any memory-restricted system.")
      (list python-grpc-stubs
            python-grpcio-tools
            python-pytest
-           python-typing-extensions))
+           python-typing-extensions
+           python-setuptools
+           python-wheel))
     (propagated-inputs
      (list protobuf
            python-protobuf
diff --git a/gnu/packages/python-build.scm b/gnu/packages/python-build.scm
index 71f9e5c7da..2108c3db17 100644
--- a/gnu/packages/python-build.scm
+++ b/gnu/packages/python-build.scm
@@ -206,7 +206,7 @@ Python file, so it can be easily copied into your project.")
     (build-system pyproject-build-system)
     (arguments (list #:build-backend "setuptools.build_meta"
                      #:tests? #f))      ;keep dependencies to a minimum
-    (native-inputs (list python-wheel))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/pypa/trove-classifiers")
     (synopsis "Canonical source for classifiers on PyPI")
     (description "This package is the canonical source for classifiers use on
@@ -656,6 +656,7 @@ specified by PEP 517, @code{flit_core.buildapi}.")
                      ;; builder instead.
                      #:build-backend "setuptools.build_meta"))
     (propagated-inputs (list python-flit-core python-setuptools-scm python-tomli))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://gitlab.com/WillDaSilva/flit_scm")
     (synopsis "PEP 518 build backend combining flit_core and setuptools_scm")
     (description "This package provides a PEP 518 build backend that uses
diff --git a/gnu/packages/python-check.scm b/gnu/packages/python-check.scm
index fb83031094..955ef0dcb4 100644
--- a/gnu/packages/python-check.scm
+++ b/gnu/packages/python-check.scm
@@ -722,8 +722,10 @@ running the tests.")
                          ;; Requiring git available.
                          " and not test_generate_diff_basic"))))
     (native-inputs
-     (list python-numpy python-pytest python-setuptools-scm))
-    (home-page "https://github.com/scientific-python/pytest-doctestplus")
+     (list python-numpy python-pytest python-setuptools python-setuptools-scm
+           python-wheel))
+    (propagated-inputs (list python-setuptools)) ;for pkg_resources
+    (home-page "https://github.com/astropy/pytest-doctestplus")
     (synopsis "Pytest plugin with advanced doctest features")
     (description
      "This package contains a plugin for the Pytest framework that provides
@@ -772,7 +774,9 @@ for interactively selecting and running Pytest tests.")
      (list python-pytest
            python-pytest-cov
            python-pytest-doctestplus
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/astropy/pytest-filter-subpackage")
     (synopsis "Pytest plugin for filtering based on sub-packages")
     (description
@@ -885,7 +889,8 @@ were inadvertently left open at the end of a unit test.")
                                  "not test_default_behavior"
                                  " and not test_strict_with_decorator"))))
     (native-inputs
-     (list python-pytest python-setuptools-scm))
+     (list python-pytest python-setuptools python-setuptools-scm
+           python-wheel))
     (propagated-inputs
      (list python-packaging))
     (home-page "https://github.com/astropy/pytest-remotedata")
@@ -979,7 +984,9 @@ framework and makes it easy to undo any monkey patching.  The fixtures are:
      (list
       #:test-flags #~(list "-m" "mpl_image_compare")))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest
+           python-setuptools
+           python-wheel))
     (propagated-inputs
      (list python-jinja2
            python-matplotlib
@@ -1964,7 +1971,8 @@ the implementation of that name.")
                 (("def test_memory_profiler")
                  "def __off_test_memory_profiler")))))))
     (native-inputs
-     (list python-pytest python-pytest-fixture-config python-safety))
+     (list python-pytest python-pytest-fixture-config python-safety
+           python-setuptools python-wheel))
     (propagated-inputs (list python-psutil))
     (home-page "https://github.com/pythonprofilers/memory_profiler")
     (synopsis "Memory profiler for Python")
@@ -2457,7 +2465,7 @@ tests at one time.")
     (native-inputs
      (list python-pbr python-ddt python-pytest))
     (propagated-inputs
-     (list python-aiohttp))
+     (list python-aiohttp python-setuptools))
     (home-page "https://github.com/pnuckowski/aioresponses")
     (synopsis "Mock out requests made by ClientSession from aiohttp package")
     (description
@@ -2705,7 +2713,9 @@ which make writing and running functional and integration tests easier.")
     (native-inputs
      (list python-jinja2
            python-pytest
-           python-tox))
+           python-tox
+           python-setuptools
+           python-wheel))
     (home-page "https://nox.thea.codes/")
     (synopsis "Flexible test automation")
     (description
@@ -2859,7 +2869,8 @@ parametrize.  This plugin allows you to use all four.")
         (base32 "1ncpd74hmsz4sadvjg99fnfscxpgh3mc2siini0dhxzwgwdkk5i7"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-httpx))
-    (native-inputs (list python-pytest python-pytest-asyncio))
+    (native-inputs (list python-pytest python-pytest-asyncio python-setuptools
+                         python-wheel))
     (home-page "https://colin-b.github.io/pytest_httpx/")
     (synopsis "Pytest plugin to mock httpx")
     (description "This package provides a pytest fixture to mock httpx
@@ -2936,7 +2947,8 @@ running acceptance tests on headless servers.")
                                       ;; skip test that uses python-pint
                                       ;; pint has many dependencies
                                       "not test_whitelists_with_python")))))))
-    (native-inputs (list python-pytest python-pytest-cov))
+    (native-inputs (list python-pytest python-pytest-cov
+                         python-setuptools python-wheel))
     (propagated-inputs (list python-toml))
     (home-page "https://github.com/jendrikseipp/vulture")
     (synopsis "Find dead Python code")
diff --git a/gnu/packages/python-compression.scm b/gnu/packages/python-compression.scm
index 96e607bfe9..80d4a70114 100644
--- a/gnu/packages/python-compression.scm
+++ b/gnu/packages/python-compression.scm
@@ -114,7 +114,9 @@ This Python package wraps the Blosc library.")
            python-hypothesis
            python-pyannotate
            python-pytest
-           python-pytest-cov))
+           python-pytest-cov
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/miurahr/multivolume")
     (synopsis "Treat multiple files as one")
     (description "MultiVolumefile is a Python library that provides a
@@ -249,7 +251,9 @@ following algorithms are available:
            python-hypothesis
            python-pytest
            python-pytest-cov
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (home-page "https://codeberg.org/miurahr/pybcj")
     (synopsis "BCJ filter library")
     (description "In data compression, BCJ, short for Branch-Call-Jump, refers
@@ -309,6 +313,7 @@ Jump conversion filter by CFFI for Python.")
                (setenv "USE_SHARED_BROTLI" "1"))))))
     (propagated-inputs (list python-cffi))
     (inputs (list brotli))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/python-hyper/brotlicffi")
     (synopsis "Python CFFI bindings to the Brotli library")
     (description "This package provides Python CFFI bindings to the Brotli
@@ -330,7 +335,9 @@ library.")
     (native-inputs
      (list python-pyannotate
            python-pytest
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (home-page "https://pypi.org/project/inflate64/")
     (synopsis "deflate64 compression/decompression library")
     (description "The @code{inflate64} package provides @code{Deflater} and
@@ -359,7 +366,7 @@ compression algorithm.")
          (add-after 'unpack 'use-dynamic-linking
            (lambda _ (setenv "PYTHON_ISAL_LINK_DYNAMIC" "1"))))))
     (inputs (list isa-l))
-    (native-inputs (list python-cython))
+    (native-inputs (list python-cython python-setuptools python-wheel))
     (home-page "https://github.com/pycompression/python-isal")
     (synopsis "Python bindings for the ISA-L compression library")
     (description
@@ -405,7 +412,9 @@ headers compressed with QPACK.")
            python-pytest-benchmark
            python-pytest-cov
            python-pytest-timeout
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/miurahr/pyppmd")
     (synopsis "PPMd compression/decompression library")
     (description "Pyppmd provides classes and functions for compressing and
@@ -467,6 +476,7 @@ several possible methods.")
            python-texttable))
     (native-inputs
      (list python-setuptools
+           python-wheel
            python-setuptools-scm
            python-coverage
            python-coveralls
diff --git a/gnu/packages/python-crypto.scm b/gnu/packages/python-crypto.scm
index d25059c86b..1b14b8bc87 100644
--- a/gnu/packages/python-crypto.scm
+++ b/gnu/packages/python-crypto.scm
@@ -299,7 +299,9 @@ do what is needed for client/server Kerberos authentication based on
     (native-inputs
      (list python-toml
            python-pytest
-           python-setuptools-scm))
+           python-setuptools
+           python-setuptools-scm
+           python-wheel))
     (propagated-inputs
      (list python-importlib-metadata
            python-jaraco-classes
@@ -533,6 +535,7 @@ def contents() -> str:
          "17m1azxfc3w0390jp9mkx1v0k3xfv4v1lrgch4hvbbm77s0z42j4"))))
     (build-system pyproject-build-system)
     (arguments (list #:tests? #f))  ; No tests included.
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/pyca/cryptography")
     (synopsis "Test vectors for the cryptography package")
     (description
@@ -578,7 +581,9 @@ def contents() -> str:
            python-pretend
            python-pytest                ;for subtests
            python-pytest-benchmark
-           python-pytest-subtests))
+           python-pytest-subtests
+           python-setuptools
+           python-wheel))
     (inputs (list python-cryptography-rust))
     (propagated-inputs (list python-cffi))
     (home-page "https://github.com/pyca/cryptography")
@@ -1079,7 +1084,7 @@ provides drop-in compatibility with PyCrypto.")))
        ;; certificates.
        #:tests? #f))
     (inputs (list openssl))
-    (native-inputs (list swig))
+    (native-inputs (list swig python-setuptools python-wheel))
     (home-page "https://gitlab.com/m2crypto/m2crypto")
     (synopsis "Python crypto and TLS toolkit")
     (description "@code{M2Crypto} is a complete Python wrapper for OpenSSL
@@ -1266,7 +1271,8 @@ derivation function.")
                (base32
                 "0d4x84crbz0a17d8gi90z6zlxwm9pslc65rx0cdw2797ra360v3f"))))
     (build-system pyproject-build-system)
-    (native-inputs (list python-idna python-pytest))
+    (native-inputs (list python-idna python-pytest python-setuptools
+                         python-wheel))
     (propagated-inputs (list python-attrs python-cryptography python-pyasn1
                              python-pyasn1-modules python-six))
     (home-page "https://service-identity.readthedocs.io/")
@@ -1497,6 +1503,8 @@ items and collections, editing items, locking and unlocking collections
            python-pytest
            python-pytest-cov
            python-service-identity
+           python-setuptools
+           python-wheel
            python-zipp))
     (propagated-inputs
      (list python-cryptography
diff --git a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm
index 82089da775..493e7680ce 100644
--- a/gnu/packages/python-science.scm
+++ b/gnu/packages/python-science.scm
@@ -367,9 +367,12 @@ routines such as routines for numerical integration and optimization.")
              (invoke "python" "setup.py" "build_ext" "--inplace"))))))
     (propagated-inputs
      (list python-dask
-           python-numpy))
+           python-numpy
+           python-click))
     (native-inputs
      (list python-cython
+           python-setuptools
+           python-wheel
            ;; The following are all needed for the tests
            htslib
            python-h5py
@@ -599,7 +602,7 @@ swarm algorithm.")
            python-scikit-learn
            python-scipy))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (home-page "https://scikit-optimize.github.io/")
     (synopsis "Sequential model-based optimization toolbox")
     (description "Scikit-Optimize, or @code{skopt}, is a simple and efficient
@@ -1663,7 +1666,7 @@ multiple deep learning frameworks.")
              (string-append "not test_datetime_conversion_warning"
                             " and not test_timedelta_conversion_warning"))))
     (native-inputs
-     (list python-setuptools-scm python-pytest))
+     (list python-setuptools python-setuptools-scm python-pytest python-wheel))
     (propagated-inputs
      (list python-numpy python-packaging python-pandas))
     (home-page "https://github.com/pydata/xarray")
@@ -1830,7 +1833,9 @@ parentdir_prefix = pytensor-
     (native-inputs (list python-cython
                          python-pytest
                          python-pytest-mock
-                         python-versioneer))
+                         python-versioneer
+                         python-setuptools
+                         python-wheel))
     (propagated-inputs (list python-cons
                              python-etuples
                              python-filelock
@@ -2690,7 +2695,9 @@ aggregated sum and more.")
                          python-pandas
                          python-pytest
                          python-pytest-cov
+                         python-setuptools
                          python-setuptools-scm
+                         python-wheel
                          tzdata-for-tests))
     (home-page "https://github.com/has2k1/plotnine")
     (synopsis "Grammar of Graphics for Python")
@@ -3378,7 +3385,8 @@ and from numpy arrays.")
                 "0mrm4rd6x1sm6hkvhk20mkqp9q53sl3lbvq6hqzyymkw1iqq6bhy"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-lxml python-six))
-    (native-inputs (list python-pytest python-numpy python-tables))
+    (native-inputs (list python-pytest python-numpy python-tables
+                         python-setuptools python-wheel))
     (home-page "https://libneuroml.readthedocs.org/en/latest/")
     (synopsis
      "Python library for working with NeuroML descriptions of neuronal models")
diff --git a/gnu/packages/python-web.scm b/gnu/packages/python-web.scm
index 1363e6ccdf..91b3a3d86d 100644
--- a/gnu/packages/python-web.scm
+++ b/gnu/packages/python-web.scm
@@ -429,7 +429,8 @@ by calling @code{FrozenList.freeze}.")
     (build-system pyproject-build-system)
     (arguments (list #:test-flags #~(list "tests")))
     (propagated-inputs (list python-frozenlist))
-    (native-inputs (list python-pytest python-pytest-asyncio python-pytest-cov))
+    (native-inputs (list python-pytest python-pytest-asyncio python-pytest-cov
+                         python-setuptools python-wheel))
     (home-page "https://github.com/aio-libs/aiosignal")
     (synopsis "Callback manager for Python @code{asyncio} projects")
     (description "This Python module provides @code{Signal}, an abstraction to
@@ -750,7 +751,9 @@ WSGI.  This package includes libraries for implementing ASGI servers.")
                          python-httpx
                          python-pytest
                          python-pytest-asyncio
-                         python-starlette))
+                         python-starlette
+                         python-setuptools
+                         python-wheel))
     (home-page "https://github.com/simonw/asgi-csrf")
     (synopsis "ASGI middleware for protecting against CSRF attacks")
     (description "This Asynchronous Server Gateway Interface (ASGI)
@@ -791,7 +794,9 @@ that is then compared to a @code{csrftoken} hidden form field or a
     (native-inputs (list python-pytest
                          python-pytest-asyncio
                          python-pytest-trio
-                         python-starlette))
+                         python-starlette
+                         python-setuptools
+                         python-wheel))
     (propagated-inputs (list python-sniffio))
     (home-page "https://github.com/florimondmanca/asgi-lifespan")
     (synopsis "Programmatic startup/shutdown of ASGI apps")
@@ -937,7 +942,9 @@ Model} (SAM) templates into AWS CloudFormation templates.")
            python-pytest-benchmark
            python-requests
            python-sqlalchemy
-           python-webtest))
+           python-webtest
+           python-setuptools
+           python-wheel))
     (propagated-inputs
      (list python-aiohttp
            python-botocore
@@ -1274,7 +1281,9 @@ over a different origin than that of the web application.")
            python-pytest-randomly
            python-pytest-timeout
            python-pytest-xdist
-           python-six))
+           python-six
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/httplib2/httplib2")
     (synopsis "Comprehensive HTTP client library")
     (description
@@ -1670,7 +1679,7 @@ for use in Python programs that implement HTTP/2.")
         (base32 "17b97c56y31hi0n0x0cb5a87x4xr9jijf2y06pzj0977k6zgn6cg"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/python-hyper/h11")
     (synopsis "Pure-Python, bring-your-own-I/O implementation of HTTP/1.1")
     (description
@@ -2126,7 +2135,9 @@ is Python’s.")
            python-pytest-socket
            python-requests-mock
            python-setuptools-scm
-           python-tox))
+           python-tox
+           python-setuptools
+           python-wheel))
     (home-page "https://omnipathdb.org/")
     (synopsis "Python client for the OmniPath web service")
     (description "This package provides a Python client for the OmniPath web
@@ -2156,7 +2167,7 @@ service.")
     (propagated-inputs (list python-aiohttp python-requests python-tqdm
                              python-typing-extensions))
     (native-inputs (list python-black python-pytest python-pytest-asyncio
-                         python-pytest-mock))
+                         python-pytest-mock python-setuptools python-wheel))
     (home-page "https://github.com/openai/openai-python")
     (synopsis "Python client library for the OpenAI API")
     (description "This package provides a Python client library for the
@@ -2361,7 +2372,7 @@ for clients and servers.")
                                      "and not encutils "
                                      "and not website.logging")))))))
     (native-inputs
-     (list python-pytest python-jaraco-test))
+     (list python-pytest python-jaraco-test python-setuptools python-wheel))
     (home-page "https://github.com/jaraco/cssutils")
     (synopsis
       "CSS Cascading Style Sheets library for Python")
@@ -2539,7 +2550,7 @@ set out in RFC 7540 Section 5.3 (Stream Priority).")
         (base32 "0rahm1j9danv1l6i6as80acwv16ycihxkhrvwjiqh9drxhk5ymmd"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (propagated-inputs
      (list python-h11))
     (home-page "https://github.com/python-hyper/wsproto/")
@@ -4182,7 +4193,7 @@ presume or force a developer to use a particular tool or library.")
                 "178jzz6jxlxllcjqamzh5q7ahfh90m5cl1il9vmjs3xhz65z35pf"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-brotli python-flask))
-    (native-inputs (list python-setuptools-scm))
+    (native-inputs (list python-setuptools-scm python-setuptools python-wheel))
     (home-page "https://github.com/colour-science/flask-compress")
     (synopsis "Compress responses in a Flask app")
     (description
@@ -4205,6 +4216,7 @@ headers required for a compressed response and compresses the response data.")
     (arguments
      (list #:tests? #false)) ;there are none
     (propagated-inputs (list python-flask))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/maxcountryman/flask-seasurf/")
     (synopsis "CSRF extension for Flask")
     (description "SeaSurf is a Flask extension for preventing cross-site
@@ -4636,7 +4648,7 @@ transfers.")
                             "flask_jwt/__init__.py")
                (("access_token.decode\\('utf-8'\\)") "access_token")))))))
     (propagated-inputs (list python-flask python-pyjwt))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/mattupstate/flask-jwt")
     (synopsis "JWT token authentication for Flask apps")
     (description "This package implements JWT token authentication for Flask
@@ -4663,7 +4675,9 @@ apps.")
     (native-inputs
      (list python-blinker
            python-mock
-           python-pytest))
+           python-pytest
+           python-setuptools
+           python-wheel))
     (home-page "https://www.github.com/flask-restful/flask-restful/")
     (synopsis "Flask module for creating REST APIs")
     (description
@@ -5329,9 +5343,9 @@ package from WTForms.  The package has been renamed to
            (delete-file "tests/test_proxy.py") #t))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-pytest python-nose))
+     (list python-pytest python-wheel))
     (propagated-inputs
-     (list python-six))
+     (list python-six python-setuptools))
     (home-page "https://pythonpaste.readthedocs.io/")
     (synopsis
      "Python web development tools, focusing on WSGI")
@@ -5604,6 +5618,7 @@ with oauthlib.")
            python-stem
            python-validators
            python-waitress))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/benbusby/whoogle-search")
     (synopsis "Self-hosted, ad-free, privacy-respecting metasearch engine")
     (description
@@ -5701,7 +5716,7 @@ ecosystem.")
                    ;; Pretend to be a CI system to skip flaky tests.
                    (setenv "CI" "true"))))))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (propagated-inputs
      (list python-idna))
     (home-page "https://github.com/python-hyper/hyperlink")
@@ -6466,7 +6481,9 @@ and serve updated contents upon changes to the directory.")
            python-pytest-httpbin
            python-pytest-trio
            python-uvicorn
-           python-trustme))
+           python-setuptools
+           python-trustme
+           python-wheel))
     (propagated-inputs
      (list python-anyio
            python-certifi
@@ -6500,7 +6517,7 @@ Some things HTTP Core does do:
    (package/inherit python-httpcore
      (name "python-httpcore-bootstrap")
      (arguments (list #:tests? #f))
-     (native-inputs '()))))
+     (native-inputs (list python-setuptools python-wheel)))))
 
 (define-public python-httpx
   (package
@@ -6544,7 +6561,9 @@ Some things HTTP Core does do:
            python-trio
            python-trio-typing
            python-trustme
-           python-uvicorn))
+           python-uvicorn
+           python-setuptools
+           python-wheel))
     (propagated-inputs
      (list python-charset-normalizer
            python-brotli
@@ -6776,7 +6795,7 @@ major web browsers.")
                                 "/include/rapidjson" "'"))
                 (("if not os.path.isdir.*") "if False:")))))))
     (native-inputs
-     (list rapidjson python-pytest python-pytz))
+     (list rapidjson python-pytest python-pytz python-setuptools python-wheel))
     (home-page "https://github.com/python-rapidjson/python-rapidjson")
     (synopsis "Python wrapper around rapidjson")
     (description "This package provides a python wrapper around rapidjson.")
diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm
index ff507e1855..3c29a26cf1 100644
--- a/gnu/packages/python-xyz.scm
+++ b/gnu/packages/python-xyz.scm
@@ -480,7 +480,8 @@ similar XML files, in the same way the @command{diff} utility does it.")
         (base32 "04hnrdcf03g1s0x3sr72sh9gnszz6kyfsl9dg8a4n0zvvhn6z5yz"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-pytest python-pytest-cov python-pytest-asyncio))
+     (list python-pytest python-pytest-cov python-pytest-asyncio
+           python-setuptools python-wheel))
     (propagated-inputs (list python-typing-extensions))
     (home-page "https://github.com/aio-libs/janus/")
     (synopsis
@@ -943,6 +944,7 @@ and variables you'll need already imported and created.
              (substitute* "setup.py"
                ((".\\*\"") "\"")))))))
     (propagated-inputs (list python-numpy python-scipy))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/joachimwolff/fit_nbinom")
     (synopsis "Negative binomial maximum likelihood estimator")
     (description "This package provides an implementation in Python using
@@ -961,7 +963,8 @@ scipy and numpy of negative binomial maximum likelihood estimation.")
                 "0523jrzjj29kxpdllmfhrfj9kysi9mphp2m7ippjkn5b07i1g2pd"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-six))
-    (native-inputs (list python-pytest python-pytest-runner))
+    (native-inputs (list python-pytest python-pytest-runner
+                         python-setuptools python-wheel))
     (home-page "https://github.com/Chilipp/docrep")
     (synopsis "Python package for docstring repetition")
     (description "Docrep is the documentation repetition module.  This module
@@ -1039,6 +1042,7 @@ features of the Python's built-in dict.")
     (build-system pyproject-build-system)
     (arguments (list #:tests? #false)) ;there are none
     (propagated-inputs (list python-matplotlib python-numpy))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/Phlya/adjustText")
     (synopsis "Adjust text position in matplotlib plots to minimize overlaps")
     (description
@@ -1200,6 +1204,7 @@ HoloViews, and Datashader.")
                 "196ins0m7f90xz5dw764dlx060ziqbcydqzzq40b4ir5858baf3r"))))
     (build-system pyproject-build-system)
     (arguments (list #:tests? #false)) ;the tests are not run automatically
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://gitlab.com/dslackw/colored")
     (synopsis "Simple library for color and formatting to terminal")
     (description "This is a very simple Python library for color and
@@ -1222,7 +1227,8 @@ names for 256 color terminal setups.")
         (base32 "0kyy9qhvrb5m9h8xmri7c88i0k1g5qc7017anw39gx44an7mn33y"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-coverage python-flake8 python-pytest))
+     (list python-coverage python-flake8 python-pytest python-setuptools
+           python-wheel))
     (propagated-inputs
      (list python-colorama))
     (home-page "http://github.com/timofurrer/colorful")
@@ -1632,7 +1638,8 @@ Specification v2.0 (PEP 249).")
                (base32
                 "0gxkw607nrd67ck4w8jri9vfrm5g60qvp8b134m8zkiphbxjnx0l"))))
     (build-system pyproject-build-system)
-    (native-inputs (list python-pytest python-jinja2 python-pygments))
+    (native-inputs (list python-pytest python-jinja2 python-pygments
+                         python-setuptools python-wheel))
     (arguments
      (list
       ;; Some tests fail, presumably because of slight version mismatches of
@@ -1739,6 +1746,7 @@ different units.")
                 "1gpy1z2i4vq1mcrhysxahz4339pbl9rzk58rf5m5gf5ym9xji6ii"))))
     (build-system pyproject-build-system)
     (arguments (list #:tests? #false)) ;there are none
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/piccolomo/plotext")
     (synopsis "Plots in the terminal")
     (description "Plotext lets you plot directly to the terminal.")
@@ -1893,6 +1901,8 @@ generator MkDocs.")
            python-matplotlib
            python-pandas
            python-poetry-core
+           python-setuptools
+           python-wheel
            python-pytest))
     (home-page "https://github.com/crflynn/skranger")
     (synopsis "Python bindings for C++ ranger random forests")
@@ -2060,7 +2070,7 @@ threads.")
     (build-system pyproject-build-system)
     (native-inputs
      (list python-setuptools-scm python-tornado-6 python-typeguard
-           python-pytest))
+           python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/jd/tenacity")
     (synopsis "Retrying library for python")
     (description "Tenacity is a general-purpose python library to simplify the
@@ -2216,9 +2226,8 @@ Python library and command line interface.")
               ;; which is patched above.
               (delete-file "tests/test_config.py"))))))
     (native-inputs
-     (list python-pytest
-           python-pytest-xdist
-           python-scikit-image))
+     (list python-pytest python-pytest-xdist
+           python-scikit-image python-setuptools python-wheel))
     (inputs
      (list openjpeg  ; glymur/lib/openjp2.py
            libtiff)) ; glymur/lib/tiff.py
@@ -2509,7 +2518,7 @@ utilities such as ping(1).")
                              python-click-plugins
                              python-cligj
                              python-numpy
-                             python-setuptools
+                             python-setuptools ; For pkg_resources.
                              python-snuggs))
     (native-inputs (list gdal
                          python-boto3
@@ -2518,7 +2527,8 @@ utilities such as ping(1).")
                          python-packaging
                          python-pytest
                          python-pytest-cov
-                         python-shapely))
+                         python-shapely
+                         python-wheel))
     (home-page "https://github.com/rasterio/rasterio")
     (synopsis "Fast and direct raster I/O for use with Numpy and SciPy")
     (description "This package implements fast and direct raster I/O for use
@@ -2545,7 +2555,7 @@ with Numpy and SciPy.")
              ;; Cython extensions have to be built before running the tests.
              (invoke "python" "setup.py" "build_ext" "--inplace"))))))
     (native-inputs
-     (list python-cython python-matplotlib python-pytest))
+     (list python-cython python-matplotlib python-pytest python-setuptools python-wheel))
     (inputs
      (list geos))
     (propagated-inputs
@@ -2831,7 +2841,9 @@ NetCDF files can also be read and modified.  Python-HDF4 is a fork of
     (native-inputs
      (list python-netcdf4
            python-pytest
-           python-setuptools-scm))
+           python-setuptools
+           python-setuptools-scm
+           python-wheel))
     (propagated-inputs
      (list python-h5py python-packaging))
     (home-page "https://h5netcdf.org")
@@ -3173,7 +3185,7 @@ and lookups.")
         (base32 "0lvshl2fhwa568d3y3vmx45hdp8gk5w9yl3b2q5d66r5vqn1sfwl"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-setuptools-scm python-pytest))
+     (list python-setuptools-scm python-pytest python-setuptools python-wheel))
     (propagated-inputs
      (list python-boolean.py))
     (home-page "https://github.com/nexB/license-expression")
@@ -3295,7 +3307,8 @@ inter-process communication.")
         (base32
          "058av1r760ws7z6qffsjpqa39fmdxw0s1wnyr7p50y3zclg6cyqk"))))
     (build-system pyproject-build-system)
-    (native-inputs (list python-pytest python-setuptools-scm))
+    (native-inputs (list python-pytest python-setuptools-scm
+                         python-setuptools python-wheel))
     (home-page "https://github.com/tox-dev/py-filelock")
     (synopsis "Platform independent file lock")
     (description "@code{filelock} contains a single module implementing
@@ -3556,7 +3569,8 @@ class.")
          ;; These tests fail with "OSError: [Errno 19] No such device".
          "-k" "not BasicTestUdpMulticastBusIPv")))
     (propagated-inputs
-     (list python-msgpack python-typing-extensions python-wrapt))
+     (list python-msgpack python-typing-extensions python-wrapt
+           python-setuptools))
     (native-inputs
      (list ;; python-canalystii ; Not packed yet
            python-codecov
@@ -3569,7 +3583,8 @@ class.")
            python-pytest
            python-pytest-cov
            python-pytest-runner
-           python-pytest-timeout))
+           python-pytest-timeout
+           python-wheel))
     (home-page "https://github.com/hardbyte/python-can")
     (synopsis "Controller Area Network (CAN) interface module for Python")
     (description "This package defines the @code{can} module, which provides
@@ -3704,6 +3719,7 @@ a library.")
         (base32 "1920wbh2b7a8qn7zx2iiqbcdaax335l81a73x9pp8h11yzs2jdmh"))))
     (build-system pyproject-build-system)
     (arguments (list #:tests? #false))  ;There are none
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/gvalkov/optparse-pretty")
     (synopsis "Compact help formatter for optparse")
     (description
@@ -3914,6 +3930,7 @@ for additional processing.")
                         ;; XXX: Fails with: "In procedure utime: No such file
                         ;; or directory".
                         (delete 'ensure-no-mtimes-pre-1980))))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/fastai/fastprogress")
     (synopsis "Progress bar for Jupyter Notebook and console")
     (description
@@ -4147,6 +4164,8 @@ of @code{xmlfile}.")
            python-pytest
            python-pytest-rerunfailures
            python-pytest-xdist
+           python-setuptools
+           python-wheel
            unzip
            (origin
              (method url-fetch)
@@ -4509,7 +4528,9 @@ Python.")
            python-pytest-subtests
            python-responses
            python-tox
-           python-types-requests))
+           python-types-requests
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/omni-us/jsonargparse/")
     (synopsis "Implement minimal boilerplate CLIs derived from type hints")
     (description
@@ -4738,7 +4759,7 @@ commands.")
                (base32
                 "1a4h0jpsr3wjciqg9a5kslxv65d3qqgmqgkpai4cl77wlpcxfk89"))))
     (build-system pyproject-build-system)
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://jiffyclub.github.io/palettable/")
     (synopsis "Color palettes for Python")
     (description "Palettable (formerly brewer2mpl) is a library of color
@@ -4819,7 +4840,8 @@ syntax.")
                            (string-append "not test_sending_empty_netstring"
                             " and not test_sending_one_netstring"
                             " and not test_sending_two_netstrings"))))
-    (native-inputs (list python-pytest python-twisted))
+    (native-inputs (list python-pytest python-twisted python-setuptools
+                         python-wheel))
     (home-page "https://launchpad.net/parsley")
     (synopsis "Parsing and pattern matching Python library")
     (description
@@ -4970,7 +4992,9 @@ PDF, PNG, EPS and SVG).")
                          python-pytest-cov
                          python-pytest-mypy
                          python-pytest-timeout
-                         python-redis))
+                         python-redis
+                         python-setuptools
+                         python-wheel))
     (home-page "https://github.com/WoLpH/portalocker")
     (synopsis "Python library for file locking")
     (description "Portalocker is a library to provide an easy API to file
@@ -5060,7 +5084,9 @@ and is not compatible with JSON.")
           python-pytest
           python-pytest-astropy
           python-pytest-cov
-          python-setuptools-scm))
+          python-setuptools-scm
+          python-setuptools
+          python-wheel))
   (home-page "https://extension-helpers.readthedocs.io")
   (synopsis "Astropy ecosystem utilities for building and installing packages")
   (description
@@ -5555,12 +5581,14 @@ clickgen is using @code{anicursorgen} and @code{xcursorgen} under the hood.")
            python-orjson
            python-pandas
            python-pytz
+           python-setuptools ; For pkg_resources.
            python-sqlalchemy
            python-urllib3
            python-zstandard))
     (native-inputs
      (list python-cython
-           python-pytest))
+           python-pytest
+           python-wheel))
     (home-page "https://github.com/ClickHouse/clickhouse-connect")
     (synopsis
      "ClickHouse database core driver for Python, Pandas, and Superset")
@@ -5605,7 +5633,7 @@ well-tested and interoperable CLIs for handling GeoJSON.")
                 "05c6cjpnf9s72gyn5dckxbmd8rf2kgdzfsl7pqzrnc1lcdl13zmv"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-click))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/janLuke/cloup")
     (synopsis "Extension library for python-click")
     (description
@@ -5733,7 +5761,8 @@ and convert DDL to BigQuery JSON schema.")
               (when tests?
                 (setenv "JSON_SCHEMA_TEST_SUITE" "json")
                 (invoke "trial" "jsonschema")))))))
-    (native-inputs (list python-setuptools-scm python-twisted))
+    (native-inputs (list python-setuptools-scm python-twisted
+                         python-setuptools python-wheel))
     (propagated-inputs
      (list python-attrs
            python-importlib-metadata
@@ -5936,7 +5965,9 @@ memory usage and transliteration quality.")
            python-cryptography
            python-pytest
            python-sphinx
-           python-sphinx-rtd-theme))
+           python-sphinx-rtd-theme
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/progrium/pyjwt")
     (synopsis "JSON Web Token implementation in Python")
     (description
@@ -6183,7 +6214,7 @@ work on your part.")
                (base32
                 "17f55gi55rg47nm88fn3f8851ph03dgykdp011lxr3j6hk18lyfv"))))
     (build-system pyproject-build-system)
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/tsutsu3/uc.micro-py")
     (synopsis "Unicode data files for linkify-it-py projects")
     (description "This package contains a micro subset of Unicode data files
@@ -6205,7 +6236,7 @@ for linkify-it-py projects.")
                 "0fg0a1lc8xbb62y9krxcp708ll58dxcwm8i7rrwpkd5sh2229f6x"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-uc-micro-py))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/tsutsu3/linkify-it-py")
     (synopsis "Links recognition library with full Unicode support")
     (description "This is Python port of
@@ -6230,7 +6261,7 @@ recognition library with full Unicode support.  It has features like:
                 "19a8dga8rnmjn5gy1cy1wdi28swbkdkypwbqikbxil6ynqcg3c20"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-pytest python-setuptools-scm))
+     (list python-pytest python-setuptools python-setuptools-scm python-wheel))
     (home-page "https://github.com/smarie/python-makefun")
     (synopsis "Library to dynamically create python functions")
     (description "@code{makefun} helps create functions dynamically with a
@@ -6909,7 +6940,9 @@ via commands such as @command{rst2man}, as well as supporting Python code.")
            python-flake8
            python-mock
            python-pyparsing
-           python-pytest))
+           python-pytest
+           python-setuptools
+           python-wheel))
     (propagated-inputs
      (list python-lxml))
     (home-page "https://github.com/python-openxml/python-docx/")
@@ -7085,6 +7118,7 @@ working with Valve's VDF text format.")
                (base32
                 "1qm4xdmzd4q5pc9h5gjdpr5m7lg06k8dvqnjn7d07d3fhani8d90"))))
     (build-system pyproject-build-system)
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/mina86/pygtrie")
     (synopsis "Pure Python trie data structure implementation")
     (description
@@ -8780,7 +8814,7 @@ readable format.")
         (base32 "1v34xdvh6i5cn5srwicvp0i2kvv8fzsv0v9p72ng081nsczmhgvr"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-cffi libgit2))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/libgit2/pygit2")
     (synopsis "Python bindings for libgit2")
     (description "Pygit2 is a set of Python bindings to the libgit2 shared library.")
@@ -9046,7 +9080,9 @@ semantic version parser for Node.js.")
                (base32
                 "1r1lcq59v6l75wkbp7mypanr69a6fv6m58v6dw3v6b4vwz5nqg0z"))))
     (build-system pyproject-build-system)
-    (propagated-inputs (list python-appdirs python-nose python-pyyaml))
+    (propagated-inputs (list python-appdirs python-nose python-pyyaml
+                             python-setuptools))
+    (native-inputs (list python-wheel))
     (home-page "https://github.com/simonvh/norns")
     (synopsis "Simple YAML-based config module")
     (description "This package provides a simple YAML-based config module.")
@@ -10007,7 +10043,7 @@ and therefore easier to read and write.")
               ;; NOTE: Any value works, the variable just has to be present.
               (setenv "SKIP_ONLINE" "1"))))))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (inputs
      (list bash-minimal))
     (home-page "https://github.com/pypa/distlib")
@@ -10711,10 +10747,10 @@ from FFMPEG, reliably terminating the process when done.")
               (delete-file "tests/test_freeimage.py"))))))
     (inputs (list freeimage))
     (propagated-inputs
-     (list python-imageio-ffmpeg python-numpy python-pillow python-tifffile))
+     (list python-imageio-ffmpeg python-numpy python-pillow python-tifffile python-setuptools))
     (native-inputs
      (list python-black python-flake8 python-fsspec python-pytest
-           python-pytest-cov))
+           python-pytest-cov python-wheel))
     (home-page "https://imageio.github.io/")
     (synopsis "Library for reading and writing a wide range of image data")
     (description
@@ -11907,7 +11943,9 @@ releases.")
                          python-pytest-cov
                          python-pytest-enabler
                          python-pytest-flake8
-                         python-pytest-mypy))
+                         python-pytest-mypy
+                         python-setuptools
+                         python-wheel))
     (home-page "https://github.com/jaraco/jaraco.test")
     (synopsis "Testing support by jaraco")
     (description "This package provides testing support by jaraco.")
@@ -12350,6 +12388,7 @@ container data structures in Python).")
             python-pyzmq
             python-tornado-6
             python-traitlets))
+     (native-inputs (list python-setuptools python-wheel))
      (home-page "https://jupyter.org/")
      (synopsis "Jupyter protocol implementation and client libraries")
      (description
@@ -12387,7 +12426,9 @@ installing @code{kernelspec}s for use with Jupyter frontends.")
              python-pytest-timeout
              python-async-generator
              python-ipython
-             python-ipykernel-bootstrap))
+             python-ipykernel-bootstrap
+             python-setuptools
+             python-wheel))
       (properties (alist-delete 'hidden? (package-properties base))))))
 
 (define-public python-ipykernel
@@ -12463,7 +12504,9 @@ installing @code{kernelspec}s for use with Jupyter frontends.")
            ;; and causes deprecation warnings.  Using the bootstrap variant
            ;; avoids that.
            python-pytest-bootstrap
-           python-pytest-timeout))
+           python-pytest-timeout
+           python-setuptools
+           python-wheel))
     (home-page "https://ipython.org")
     (synopsis "IPython Kernel for Jupyter")
     (description "This package provides the IPython kernel for Jupyter.")
@@ -12482,7 +12525,7 @@ installing @code{kernelspec}s for use with Jupyter frontends.")
                          ;; left out here to break the cycle.
                          #:phases #~(modify-phases %standard-phases
                                       (delete 'sanity-check))))
-        (native-inputs '())
+        (native-inputs (list python-setuptools python-wheel))
         (propagated-inputs
          (modify-inputs (package-propagated-inputs parent)
            (replace "python-jupyter-client" python-jupyter-client-bootstrap)
@@ -12552,7 +12595,9 @@ callback signature using a prototype function.")
            python-unidecode))
     (native-inputs
      (list python-pytest
-           python-pytest-cov))
+           python-pytest-cov
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/titipata/pubmed_parser")
     (synopsis "Parser for Pubmed Open-Access Subset and MEDLINE XML repository")
     (description
@@ -13917,6 +13962,7 @@ falling into the Python interpreter.")
                  "{ name = \"Maarten van der Sande\", email = \"maartenvandersande@hotmail.com\"}")
                 (("license = \"MIT\"") "license = { file = \"LICENSE\"}")))))))
     (propagated-inputs (list python-numba python-numpy python-pandas))
+    (native-inputs (list python-setuptools python-wheel python-toml))
     (home-page "https://github.com/Maarten-vd-Sande/qnorm")
     (synopsis "Quantile normalization")
     (description "This tool implements quantile normalization. It properly
@@ -13977,7 +14023,9 @@ low-level X clients.  It is written entirely in Python.")
     (build-system pyproject-build-system)
     (native-inputs
      (list python-pytest
-           python-six)) ; required for conversion, not at run-time
+           python-setuptools
+           python-six ; required for conversion, not at run-time
+           python-wheel))
     (home-page
      "https://docs.python.org/3/library/functools.html#functools.singledispatch")
     (synopsis "Backport of singledispatch feature from Python 3.4")
@@ -14403,7 +14451,8 @@ plugin for flake8 to check PEP-8 naming conventions.")
          "0yvs59ymz5gdix34a95wxlxvk9bnvjgrzsnmnc3ws7whpfv3yasm"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-packaging))
-    (native-inputs (list python-pypa-build python-pytest python-tomli))
+    (native-inputs (list python-pypa-build python-pytest python-setuptools
+                         python-tomli python-wheel))
     (home-page "https://github.com/FFY00/python-pyproject-metadata")
     (synopsis "Dataclass for PEP 621 metadata")
     (description "This project does not implement the parsing of
@@ -15218,7 +15267,8 @@ the @code{sendfile(2)} system call.")
     ;; Using Pytest instead of the Makefile causes the command line tests to
     ;; fail on unknown Pytest arguments.
     (arguments (list #:test-flags #~(list "-k" "not TestCommandLineParser")))
-    (native-inputs (list python-psutil python-pytest))
+    (native-inputs (list python-psutil python-pytest python-setuptools
+                         python-wheel))
     (propagated-inputs (list python-pyopenssl python-pysendfile))
     (home-page "https://github.com/giampaolo/pyftpdlib/")
     (synopsis "Asynchronous and scalable Python FTP server library")
@@ -16009,7 +16059,8 @@ asyncio.")
                 "0yv1wayrw9g6k0c2f721kha7wsv0s1fdlxpf5x7f34iqzq9z272h"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-numpy python-pyparsing))
-    (native-inputs (list python-hypothesis python-pytest))
+    (native-inputs (list python-hypothesis python-pytest python-setuptools
+                         python-wheel))
     (home-page "https://github.com/mapbox/snuggs")
     (synopsis "Snuggs are S-expressions for Numpy")
     (description "Snuggs are S-expressions for Numpy.")
@@ -16465,7 +16516,7 @@ domains support.")
      (build-system pyproject-build-system)
      (arguments
       (list #:tests? #f))
-     (native-inputs (list python-setuptools-scm))
+     (native-inputs (list python-setuptools python-setuptools-scm python-wheel))
      (home-page "https://github.com/jaraco/path")
      (synopsis "Object-oriented file system path manipulation library")
      (description "@code{path} (formerly @code{path.py}) implements path
@@ -17096,7 +17147,9 @@ significantly better performance.")
            python-pylint
            python-pytest
            python-pytest-benchmark
-           python-pytest-cache))
+           python-pytest-cache
+           python-setuptools
+           python-wheel))
     (home-page
      "https://github.com/horejsek/python-fastjsonschema")
     (synopsis
@@ -17179,7 +17232,7 @@ systems, as a command line tool, and as a Python library.")
             (delete-file-recursively "bleach/_vendor/html5lib")))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-html5lib python-tinycss2))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/mozilla/bleach")
     (synopsis "Whitelist-based HTML-sanitizing tool")
     (description "Bleach is an easy whitelist-based HTML-sanitizing tool.")
@@ -17715,7 +17768,7 @@ simulation, statistical modeling, machine learning and much more.")
         (base32
          "1r9ixxnish9j3dq4h0z0cwlkr4f5lgi6d8mhbzw59hbbjlmp2qhd"))))
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (build-system pyproject-build-system)
     (arguments
      (list #:test-flags
@@ -17917,7 +17970,7 @@ This allows one to make simple text-mode user interfaces on Unix-like systems")
     (build-system pyproject-build-system)
     (propagated-inputs (list python-pydantic python-srsly
                              python-typing-extensions))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/explosion/confection")
     (synopsis "Config system for Python")
     (description "Confection is a lightweight library that offers a
@@ -17984,7 +18037,8 @@ config files.")
     (propagated-inputs (list java-antlr4-runtime-python
                              python-pydevd
                              python-pyyaml))
-    (native-inputs (list icedtea antlr4 python-pytest python-pytest-mock))
+    (native-inputs (list icedtea antlr4 python-pytest python-pytest-mock
+                         python-setuptools python-wheel))
     (home-page "https://github.com/omry/omegaconf")
     (synopsis "Flexible configuration system")
     (description "OmegaConf is a hierarchical configuration system and
@@ -18003,10 +18057,10 @@ consistent API regardless of how the configuration was created.")
                (base32
                 "1l866g1dcf2ljf8fl7ggpxk1rggry0lya4d5b264gradi1qp81p7"))))
     (build-system pyproject-build-system)
-    (native-inputs
-     (list python-mock python-pytest))
     (propagated-inputs
      (list python-pyyaml))
+    (native-inputs
+     (list python-mock python-pytest python-setuptools python-wheel))
     (synopsis "Replacement for argparse")
     (description "A drop-in replacement for argparse that allows options to also
 be set via config files and/or environment variables.")
@@ -19146,6 +19200,7 @@ in pure Python.")
                (base32
                 "14hwk9j5zjc8rvirw95mrb07zdnpjaxjx2mj3rnq8pnlyaa809r4"))))
     (build-system pyproject-build-system)
+    (arguments (list #:tests? #f)) ; No tests in PyPi tarball.
     (native-inputs
      (list python-poetry-core))
     (home-page "https://github.com/srstevenson/xdg-base-dirs")
@@ -19658,7 +19713,8 @@ synchronously (wait until ready).")
            python-scikit-learn
            python-scipy
            python-toolz))
-    (native-inputs (list python-cython python-pytest python-setuptools-scm))
+    (native-inputs (list python-cython python-pytest python-setuptools-scm
+                         python-setuptools python-wheel))
     (home-page "https://pypi.org/project/cesium/")
     (synopsis "Library for time-series feature extraction and processing")
     (description
@@ -19735,7 +19791,8 @@ ISO 8859, etc.).")
                  (lambda _
                    (setenv "QT_QPA_PLATFORM" "offscreen"))))))
     (native-inputs
-     (list python-pytest python-pytest-cov python-pytest-xdist))
+     (list python-pytest python-pytest-cov python-pytest-xdist
+           python-setuptools python-wheel))
     (inputs
      (list qtbase-5))
     (propagated-inputs
@@ -19923,7 +19980,9 @@ checking library.")
             python-pytest
             python-pytest-cov
             python-pytest-dependency
-            python-tomli))
+            python-tomli
+            python-setuptools
+            python-wheel))
     (arguments
      `(#:phases
        (modify-phases %standard-phases
@@ -21037,7 +21096,9 @@ def get_requires_for_build_sdist(config_settings=None):
                          python-pytest-flake8
                          python-pytest-mypy
                          ;; For the version number
-                         python-setuptools-scm))
+                         python-setuptools-scm
+                         python-setuptools
+                         python-wheel))
     (home-page "https://github.com/jaraco/inflect")
     (synopsis "Correctly generate plurals, singular nouns, ordinals, indefinite articles")
     (description
@@ -23241,7 +23302,8 @@ from the header, as well as section details and data available.")
     (propagated-inputs
      (list pigz python-isal python-typing-extensions))
     (native-inputs
-     (list python-pytest python-pytest-timeout python-setuptools-scm))
+     (list python-pytest python-pytest-timeout python-setuptools-scm
+           python-setuptools python-wheel))
     (home-page "https://github.com/marcelm/xopen/")
     (synopsis "Open compressed files transparently")
     (description "This module provides an @code{xopen} function that works
@@ -23325,6 +23387,7 @@ efficient as possible on all supported Python versions.")
                 "1gqfh00ics2k1sm5g46l3bi8cl5fc5d1cwzh1ylvcxvdvypklqc7"))))
     (build-system pyproject-build-system)
     (arguments (list #:tests? #false)) ;there are none
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/noahmorrison/chevron")
     (synopsis "Mustache templating language renderer")
     (description "This package provides a Python implementation of the
@@ -23377,7 +23440,9 @@ Mustache templating language renderer.")
            python-pyarrow
            python-pytest
            python-pytest-runner
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (home-page "https://www.duckdb.org")
     (synopsis "DuckDB embedded database")
     (description "DuckDB is an in-process SQL OLAP database management
@@ -24236,6 +24301,7 @@ point is the point of maximum curvature.")
            python-jinja2
            python-pluggy
            python-pygments
+           python-setuptools ; For pkg_resources.
            python-tomli))
     (native-inputs
      (list python-flake8
@@ -24450,7 +24516,8 @@ while only declaring the test-specific fields.")
      ;; Disable tests that require internet.
      (list #:test-flags '(list "-k" "not net")))
     (native-inputs
-     (list python-pytest python-testfixtures python-click python-requests))
+     (list python-pytest python-testfixtures python-click python-requests
+           python-setuptools python-wheel))
     (home-page "https://github.com/pndurette/gTTS")
     (synopsis "Google Translate text-to-speech interface")
     (description
@@ -24952,7 +25019,9 @@ manipulation, or @code{stdout}.")
            python-mypy
            python-pytest
            python-pytz
-           python-simplejson))
+           python-simplejson
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/marshmallow-code/marshmallow")
     (synopsis "Convert complex datatypes to and from native Python datatypes")
     (description "@code{marshmallow} provides a library for converting complex
@@ -25014,7 +25083,9 @@ datatypes to and from native Python datatypes.")
            python-marshmallow
            python-mypy
            python-pytest
-           python-pyyaml))
+           python-pyyaml
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/marshmallow-code/apispec")
     (synopsis "Swagger/OpenAPI specification generator")
     (description "@code{python-apispec} is a pluggable API specification
@@ -25033,7 +25104,7 @@ Swagger.")
                (base32
                 "1wyw30402xq2a8icrsjmy9v43jyvawcjd85ccb2zicqlg4k5pcqd"))))
     (build-system pyproject-build-system)
-    (propagated-inputs (list python-apispec))
+    (propagated-inputs (list python-apispec python-setuptools))
     (native-inputs
      (list python-bottle
            python-flake8
@@ -25043,7 +25114,8 @@ Swagger.")
            python-pytest
            python-pyyaml
            python-tornado
-           python-tox))
+           python-tox
+           python-wheel))
     (home-page "https://github.com/marshmallow-code/apispec-webframeworks")
     (synopsis "Web framework plugins for apispec")
     (description "This package provides plugins for using @code{apispec} with
@@ -25805,7 +25877,9 @@ particularly convenient for use in tests.")
            python-pytest-mypy
            python-setuptools-scm
            python-types-freezegun
-           python-types-pytz))
+           python-types-pytz
+           python-setuptools
+           python-wheel))
     (propagated-inputs (list python-jaraco-functools python-pytz))
     (home-page "https://github.com/jaraco/tempora")
     (synopsis "Python date and time objects and routines")
@@ -25929,7 +26003,9 @@ queue.")
      (list python-pytest
            python-pytest-asyncio
            python-pytest-repeat
-           python-pytest-timeout))
+           python-pytest-timeout
+           python-setuptools
+           python-wheel))
     (home-page "https://zict.readthedocs.io/en/latest/")
     (synopsis "Composable mutable mapping tools")
     (description "This package provides abstract @code{MutableMapping} classes
@@ -26119,7 +26195,7 @@ files, and Makefiles.")
         (base32 "1q7ajgqjfivxqsqgnhp4lc4p6jxyh4zprcsdbpd6dw54inaf0av5"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/Suor/whatever")
     (synopsis "Make anonymous functions by partial application of operators")
     (description "@code{whatever} provides an easy way to make anonymous
@@ -26141,7 +26217,7 @@ functions by partial application of operators.")
        (file-name (git-file-name name version))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-pytest python-whatever))
+     (list python-pytest python-whatever python-setuptools python-wheel))
     (home-page "https://github.com/Suor/funcy")
     (synopsis "Functional tools")
     (description "@code{funcy} is a library that provides functional tools.
@@ -26618,7 +26694,7 @@ working with iterables.")
                 "040i6bjqvl33j30v865shsk30s3h7f16pqwiaj5kig857dfmqm4r"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-bitarray python-xxhash))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/joseph-fox/python-bloomfilter")
     (synopsis "Bloom filter")
     (description "This package provides a scalable Bloom filter implemented in
@@ -27782,7 +27858,8 @@ tool).")
            python-msgpack
            python-typing-extensions))
     (native-inputs
-     (list python-cython python-pytest python-setuptools-scm))
+     (list python-cython python-pytest python-setuptools-scm
+           python-setuptools python-wheel))
     (home-page "https://github.com/zarr-developers/numcodecs")
     (synopsis "Buffer compression and transformation codecs")
     (description
@@ -27908,6 +27985,7 @@ N-dimensional arrays for Python.")
            python-pandas
            python-scipy
            python-scikit-learn
+           python-setuptools ; For pkg_resources.
            python-zarr))
     (native-inputs
      (list python-awkward
@@ -27954,7 +28032,7 @@ object-oriented library such as @code{scikit-learn}.")
                (with-directory-excursion "/tmp"
                  (invoke "nosetests" "-v"))))))))
     (native-inputs
-     (list python-nose))
+     (list python-nose python-setuptools python-wheel))
     (home-page "https://pypi.org/project/dill/")
     (synopsis "Serialize all of Python")
     (description "Dill extends Python's @code{pickle} module for serializing
@@ -28006,6 +28084,7 @@ preload_resources\
                (invoke "python" "-m" "multiprocess.tests")))))))
     (propagated-inputs
      (list python-dill))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://pypi.org/project/multiprocess/")
     (synopsis "Multiprocessing and multithreading in Python")
     (description
@@ -28318,7 +28397,8 @@ append on old values.  Partd excels at shuffling operations.")
     (propagated-inputs
      (list python-aiohttp python-libarchive-c python-requests python-tqdm))
     (native-inputs
-     (list python-pytest python-pytest-mock python-numpy))
+     (list python-pytest python-pytest-mock python-numpy python-setuptools
+           python-wheel))
     (home-page "https://github.com/intake/filesystem_spec")
     (synopsis "File-system specification")
     (description "The purpose of this package is to produce a template or
@@ -28629,6 +28709,7 @@ RFC 8265 and RFC 8266.")
         (base32
          "0ga3b0m8lfsv1m3260p83lhis52yvz3d42q8gip4gfj823849hnj"))))
     (build-system pyproject-build-system)
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/abseil/abseil-py")
     (synopsis "Abseil Python common libraries")
     (description
@@ -28933,7 +29014,8 @@ programs that do multiple things at the same time with parallelized I/O.")
        (sha256
         (base32 "15wa66cs165wawh4pi808ac43n67b8jqddi5ppdcbkj5gfi68hpi"))))
     (build-system pyproject-build-system)
-    (native-inputs (list python-attrs python-pytest))
+    (native-inputs (list python-attrs python-pytest python-setuptools
+                         python-wheel))
     (propagated-inputs
      (list python-mypy python-mypy-extensions python-trio
            python-typing-extensions))
@@ -30187,7 +30269,7 @@ scripts to load entry points more quickly.")
              (when tests?
                (invoke "python" "-m" "unittest" "discover" "-v")))))))
     ;; ModuleNotFoundError: No module named 'poetry'
-    (native-inputs (list python-poetry-core))
+    (native-inputs (list python-poetry-core python-six))
     (home-page "https://github.com/vlasovskikh/funcparserlib")
     (synopsis
      "Recursive descent parsing library based on functional combinators")
@@ -30463,7 +30545,9 @@ but portable.")
            python-pytest-cov
            python-pytest-mock
            python-pytest-sugar
-           python-pytest-toolbox))
+           python-pytest-toolbox
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/samuelcolvin/watchgod")
     (synopsis "Simple, modern file watching and code reload in Python")
     (description
@@ -31771,7 +31855,7 @@ placement and scaling of SVG figures and adding markers, such as labels.")
       ;; Avoid python-pytest-coverage
       #:test-flags '(list "-c /dev/null")))
     (propagated-inputs (list python-six python-wcwidth))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/jquast/blessed")
     (synopsis "Wrapper around terminal capabilities")
     (description
@@ -32048,7 +32132,8 @@ It adds a simple and readable way to print stuff during development.")
      (list python-dateutil python-pytz python-regex python-ruamel.yaml
            python-tzlocal))
     (native-inputs
-     (list python-flake8 python-pytest python-parameterized tzdata-for-tests))
+     (list python-flake8 python-pytest python-parameterized tzdata-for-tests
+           python-setuptools python-wheel))
     (arguments
      `(#:phases
        (modify-phases %standard-phases
@@ -32946,7 +33031,9 @@ older versions of Python and so are packaged here.")
                          python-sphinx
                          python-sphinx-autobuild
                          python-sphinx-rtd-theme
-                         python-tox))
+                         python-tox
+                         python-setuptools
+                         python-wheel))
     (home-page "https://github.com/Delgan/loguru")
     (synopsis "Python logging made (stupidly) simple")
     (description "Python logging made (stupidly) simple")
@@ -35151,6 +35238,7 @@ Python, with static types.")
                 "0cas3cjkhrvsz2rmqnhqiihy9j79wxi9xbih8jk0p9r48c2q3iyy"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-types-urllib3))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/python/typeshed")
     (synopsis "Typing stubs for requests")
     (description "This package provides typing stubs for requests.")
@@ -35183,6 +35271,7 @@ Python, with static types.")
                (base32
                 "0zcipjdnbnc8ymk8mh9n5mypa0qr03rqj98lbmahldcdrrap6md1"))))
     (build-system pyproject-build-system)
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/python/typeshed")
     (synopsis "Typing stubs for urllib3")
     (description "This package provides typing stubs for urllib3.")
@@ -35200,6 +35289,7 @@ Python, with static types.")
                 "1vdwp1jjg27b22qxgm49v21nb8vm1iki3bfsm0fnq2rsz5alfwz2"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-importlib-resources))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/JelleZijlstra/typeshed_client")
     (synopsis "Library for accessing stubs in typeshed")
     (description
@@ -35595,7 +35685,9 @@ than trying to just split strings.")
            python-pytest-timeout
            python-mock
            python-numpy
-           python-psutil))
+           python-psutil
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/explosion/srsly")
     (synopsis "Serialization utilities for Python")
     (description "This package bundles some of the best Python serialization
@@ -35847,7 +35939,7 @@ objects.")
                (base32 "1irw4sqrsgpc0ibxdv1hlx0d0jr1fqs48bj6mpfylzqkag9ywlfj"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list python-pytest))
+     (list python-pytest python-setuptools python-wheel))
     (home-page "https://github.com/cgdeboer/iteround")
     (synopsis "Sum-safe rounding for Iterables")
     (description "Iteround is a standard library sum-safe rounding library for
@@ -35961,7 +36053,10 @@ object, which can be useful if you want to force your objects into a table.")
            python-mock
            python-numpy
            python-pytest
-           python-pyyaml))
+           python-pyyaml
+           python-setuptools
+           python-wheel
+           python-toml))
     (home-page "https://github.com/seperman/deepdiff")
     (synopsis "Deep difference and search of any Python object/data")
     (description
@@ -35990,7 +36085,9 @@ other.")
               (setenv "SETUPTOOLS_SCM_PRETEND_VERSION" #$version))))))
     (native-inputs
      (list python-setuptools-scm
-           python-pytest))
+           python-pytest
+           python-setuptools
+           python-wheel))
     (home-page "https://deepmerge.readthedocs.io/en/latest/")
     (synopsis "Merge nested data structures")
     (description
@@ -36442,7 +36539,7 @@ versa.  Extended WKB/WKT are also supported.")
                (base32
                 "1c0xx3p3lzrlyqhmccyq9c50f8v9pqk2992gb4nl50h2yy1m3s8v"))))
     (build-system pyproject-build-system)
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (home-page "https://nedbatchelder.com/code/cog")
     (synopsis "Content generation tool that leverages Python")
     (description "Cog is a file generation tool.  It allows using pieces of
@@ -36892,7 +36989,10 @@ path.")
            python-ruamel.yaml
            python-slugify
            python-tornado
-           tzdata-for-tests))
+           tzdata-for-tests
+           python-setuptools
+           python-wheel
+           python-toml))
     (home-page "https://github.com/spanezz/staticsite")
     (synopsis "Static site generator")
     (description "Statistic is a static site generator based on Markdown and
@@ -36985,8 +37085,9 @@ markdown-compliant strings.")
                (base32
                 "1v5c9bim8af6g8kgxp2dhm96n5vkr8sqi56w0bdh1xy49v03lw3g"))))
     (build-system pyproject-build-system)
-    (propagated-inputs (list python-pillow))
+    (propagated-inputs (list python-pillow python-setuptools))
     (inputs (list zbar))
+    (native-inputs (list python-wheel))
     (home-page "https://github.com/Polyconseil/zbarlight")
     (synopsis "Simple Python wrapper for the zbar barcode library")
     (description "Zbarlight is a simple wrapper for the zbar library.  It can
@@ -37005,6 +37106,7 @@ read all zbar supported codes.")
                 "0bqkrjxp2fbz34x3wxkxji39kxinypzg8q2994sibiay29mpipxb"))))
     (build-system pyproject-build-system)
     (inputs (list openssl))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://zeroc.com")
     (synopsis "RPC framework")
     (description
diff --git a/gnu/packages/qt.scm b/gnu/packages/qt.scm
index 1074c29063..d3780433da 100644
--- a/gnu/packages/qt.scm
+++ b/gnu/packages/qt.scm
@@ -3850,7 +3850,9 @@ Python.")
      (list python-wrapper))
     (propagated-inputs
      (list python-tomli
-           python-packaging))
+           python-packaging
+           python-setuptools
+           python-wheel))
     (home-page "https://www.riverbankcomputing.com/software/sip/intro")
     (synopsis "Python binding creator for C and C++ libraries")
     (description
diff --git a/gnu/packages/rpc.scm b/gnu/packages/rpc.scm
index b70214fa79..e7d19b1ef2 100644
--- a/gnu/packages/rpc.scm
+++ b/gnu/packages/rpc.scm
@@ -254,7 +254,7 @@ type information of gRPC.")
     (inputs
      (list abseil-cpp-20211102.0 c-ares grpc-for-python-grpcio openssl re2 zlib))
     (native-inputs
-     (list python-cython))
+     (list python-cython python-setuptools python-wheel))
     (propagated-inputs
      (list python-six))
     (home-page "https://grpc.io")
diff --git a/gnu/packages/serialization.scm b/gnu/packages/serialization.scm
index 6e66aec3f5..59002315e7 100644
--- a/gnu/packages/serialization.scm
+++ b/gnu/packages/serialization.scm
@@ -746,7 +746,9 @@ RPC system.  Think JSON, except binary.  Or think Protocol Buffers, except faste
                          python-mypy
                          python-pytest
                          python-setuptools-scm
-                         python-versioneer))
+                         python-versioneer
+                         python-setuptools
+                         python-wheel))
     (propagated-inputs (list python-pyyaml python-tomli python-tomli-w))
     (home-page "https://jcristharif.com/msgspec/")
     (synopsis "Fast serialization/validation library")
diff --git a/gnu/packages/sphinx.scm b/gnu/packages/sphinx.scm
index e280c06f2b..098a473c01 100644
--- a/gnu/packages/sphinx.scm
+++ b/gnu/packages/sphinx.scm
@@ -433,7 +433,9 @@ supported with @code{sphinx-issues}.")
     (propagated-inputs (list python-docutils-0.15 python-sphinx-4))
     (native-inputs
      (list python-pytest
-           python-pytest-regressions))
+           python-pytest-regressions
+           python-setuptools
+           python-wheel))
     (home-page "https://github.com/executablebooks/sphinx-panels")
     (synopsis "Sphinx extension for creating panels in a grid layout")
     (description
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index fe352f1b4e..ba1e78e745 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -2100,7 +2100,7 @@ and fast file reading.")
                  ;; Remove dataset with unclear license.
                  (lambda _
                    (delete-file "vega_datasets/_data/la-riots.csv"))))))
-    (native-inputs (list python-pytest))
+    (native-inputs (list python-pytest python-setuptools python-wheel))
     (propagated-inputs (list python-pandas))
     (home-page "https://github.com/altair-viz/vega_datasets")
     (synopsis "Example datasets used by Vega-related projects")
@@ -2133,6 +2133,7 @@ and Vega-Lite examples.")
                              python-jsonschema
                              python-numpy
                              python-pandas
+                             python-setuptools
                              python-toolz
                              python-typing-extensions))
     (native-inputs (list python-black
@@ -2166,7 +2167,8 @@ and Vega-Lite examples.")
            (lambda _
              ;; Cython extensions have to be built before running the tests.
              (invoke "python" "setup.py" "build_ext" "--inplace"))))))
-    (propagated-inputs (list python-cython python-numpy))
+    (propagated-inputs (list python-cython python-numpy python-setuptools
+                             python-wheel))
     (native-inputs (list python-nose))
     (home-page "http://github.com/daleroberts/hdmedians")
     (synopsis "High-dimensional medians")
@@ -2216,7 +2218,9 @@ machine learning, computer vision, and high-dimensional statistics.")
                              python-scipy
                              python-typing-extensions
                              python-xarray
-                             python-xarray-einstats))
+                             python-xarray-einstats
+                             python-setuptools
+                             python-wheel))
     (home-page "https://github.com/arviz-devs/arviz")
     (synopsis "Exploratory analysis of Bayesian models")
     (description
@@ -2481,7 +2485,9 @@ sampler for Markov chain Monte Carlo (MCMC).")
            python-pytest
            python-pytest-randomly
            python-pytest-xdist
-           python-setuptools-scm))
+           python-setuptools-scm
+           python-setuptools
+           python-wheel))
     (home-page
      (string-append "https://www.statsmodels.org/v" version "/"))
     (synopsis "Statistical modeling and econometrics in Python")
diff --git a/gnu/packages/terminals.scm b/gnu/packages/terminals.scm
index c227ff53dc..e6b69ff7f9 100644
--- a/gnu/packages/terminals.scm
+++ b/gnu/packages/terminals.scm
@@ -112,6 +112,7 @@
   #:use-module (gnu packages popt)
   #:use-module (gnu packages protobuf)
   #:use-module (gnu packages python)
+  #:use-module (gnu packages python-build)
   #:use-module (gnu packages python-check)
   #:use-module (gnu packages python-xyz)
   #:use-module (gnu packages qt)
@@ -252,8 +253,8 @@ managers.")
                    (substitute* "tests/pty_test.py"
                      (("python3") (search-input-file inputs "/bin/python3"))))))))
     (native-inputs
-     ;; For tests.
-     (list python-pytest))
+     (list python-pytest ; For tests.
+           python-setuptools python-wheel))
     (home-page "https://asciinema.org")
     (synopsis "Terminal session recorder")
     (description
diff --git a/gnu/packages/time.scm b/gnu/packages/time.scm
index 2612201c11..4bec1d574c 100644
--- a/gnu/packages/time.scm
+++ b/gnu/packages/time.scm
@@ -283,6 +283,7 @@ datetime module, available in Python 2.3+.")
                 "1wg3f3imjq3snvjccv64h5498pqv9xz664xhni7bsh8mnay91p83"))))
     (build-system pyproject-build-system)
     (propagated-inputs (list python-dateutil python-pytz))
+    (native-inputs (list python-setuptools python-wheel))
     (home-page "https://github.com/jmcantrell/python-dateutils")
     (synopsis "Various utilities for working with date and datetime objects")
     (description
@@ -366,7 +367,7 @@ Python datetime objects.")
       ;; It's optional, remove this constrain where python-pytz is updated.
       #:test-flags #~(list "-k" "not test_with_pytz")))
     (native-inputs
-     (list python-poetry-core python-pytest))
+     (list python-poetry-core python-pytest python-setuptools))
     (propagated-inputs
      (list python-cffi python-h3-3 python-numba python-numpy python-pytz))
     (home-page "https://timezonefinder.michelfe.it/gui")
diff --git a/gnu/packages/tor.scm b/gnu/packages/tor.scm
index ab1483245f..0b3818e3cc 100644
--- a/gnu/packages/tor.scm
+++ b/gnu/packages/tor.scm
@@ -50,6 +50,7 @@
   #:use-module (gnu packages glib)
   #:use-module (gnu packages pkg-config)
   #:use-module (gnu packages python)
+  #:use-module (gnu packages python-build)
   #:use-module (gnu packages python-check)
   #:use-module (gnu packages python-crypto)
   #:use-module (gnu packages python-web)
@@ -447,7 +448,8 @@ Potential client and exit connections are scrubbed of sensitive information.")
          "1542g6alycwlmvndxcijzn4d5lgycmxxb78gqd8qwgm9kw0fnr3q"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list (list glib "bin")))       ; for glib-compile-schemas.
+     (list python-setuptools python-wheel
+           (list glib "bin")))       ; for glib-compile-schemas.
     (inputs
      (list python-fire
            python-psutil
diff --git a/gnu/packages/tree-sitter.scm b/gnu/packages/tree-sitter.scm
index eb72b415ee..9bca590bd9 100644
--- a/gnu/packages/tree-sitter.scm
+++ b/gnu/packages/tree-sitter.scm
@@ -32,6 +32,7 @@
   #:use-module (gnu packages graphviz)
   #:use-module (gnu packages icu4c)
   #:use-module (gnu packages node)
+  #:use-module (gnu packages python-build)
   #:use-module (guix build-system cargo)
   #:use-module (guix build-system gnu)
   #:use-module (guix build-system pyproject)
@@ -89,7 +90,8 @@
                     name)))))))))
     (inputs (list tree-sitter))
     (native-inputs
-     (list tree-sitter-python tree-sitter-javascript))
+     (list tree-sitter-python tree-sitter-javascript
+           python-setuptools python-wheel))
     (home-page "https://github.com/tree-sitter/py-tree-sitter")
     (synopsis "Python bindings to the Tree-sitter parsing library")
     (description "This package provides Python bindings to the
diff --git a/gnu/packages/video.scm b/gnu/packages/video.scm
index 411ad4c2bf..dcd8cc302e 100644
--- a/gnu/packages/video.scm
+++ b/gnu/packages/video.scm
@@ -5761,7 +5761,7 @@ video from a Wayland session.")
                 "1z9j3r9pm4rdynlmhgsgnwnnaqw5274yfy4kyillgd77msnpbhaw"))))
     (build-system pyproject-build-system)
     (native-inputs
-     (list gettext-minimal pkg-config))
+     (list gettext-minimal pkg-config python-setuptools python-wheel))
     (inputs
      (list python-pygobject
            gtk+
diff --git a/gnu/packages/vim.scm b/gnu/packages/vim.scm
index 1ab69b9572..c226b13066 100644
--- a/gnu/packages/vim.scm
+++ b/gnu/packages/vim.scm
@@ -72,6 +72,7 @@
   #:use-module (gnu packages perl)
   #:use-module (gnu packages pkg-config)
   #:use-module (gnu packages python)
+  #:use-module (gnu packages python-build)
   #:use-module (gnu packages python-xyz)
   #:use-module (gnu packages ruby)
   #:use-module (gnu packages serialization)
@@ -1025,7 +1026,8 @@ through its msgpack-rpc API.")
                (base32
                 "00kxlb3f1k7iaxzpsr07scavmnyg8c1jmicmr13mfk2lcdac6g2b"))))
     (build-system pyproject-build-system)
-    (propagated-inputs (list python-psutil python-pynvim))
+    (propagated-inputs (list python-psutil python-pynvim python-setuptools))
+    (native-inputs (list python-wheel))
     (home-page "https://github.com/mhinz/neovim-remote")
     (synopsis "Control nvim processes using `nvr` commandline tool")
     (description "This package provide a `nvr` command, which can open File in
diff --git a/guix/build-system/pyproject.scm b/guix/build-system/pyproject.scm
index 2a2c3af3f3..94b9d79692 100644
--- a/guix/build-system/pyproject.scm
+++ b/guix/build-system/pyproject.scm
@@ -52,7 +52,12 @@
   "Return the default Python package."
   ;; Lazily resolve the binding to avoid a circular dependency.
   (let ((python (resolve-interface '(gnu packages python))))
-    (module-ref python 'python-toolchain)))
+    ;; We are using python-sans-pip-wrapper, because it does not contain
+    ;; setuptools. This allows us to skip the dependency on setuptools for
+    ;; packages which don’t need it. And it allows us to more easily swap
+    ;; out setuptools if a different version is required.
+    ;; Using python-toolchain here might cause dependency cycles.
+    (module-ref python 'python-sans-pip-wrapper)))
 
 (define sanity-check.py
   (search-auxiliary-file "python/sanity-check.py"))