gnu: python-dill: Update to 0.4.1.

* gnu/packages/python-xyz.scm (python-dill): Update to 0.4.1.
[source]: Switch to git-fetch.
[arguments] <test-backend, test-flags>: Use 'custom backend instead of
overwriting test phase.
<phases>: Use default 'check.
[native-inputs]: Remove python-wheel.
[home-page]: Update to URL to http://dill.rtfd.io/.

Change-Id: Ifd949babdc06ed4e33cdadae6f392c224f53197a

gnu/packages/django.scm

@@ -105,7 +105,7 @@ prefixing to determine WebSocket endpoints versus HTTP endpoints.")
 (define-public python-channels
   (package
     (name "python-channels")
-    (version "4.2.2")
+    (version "4.3.2")
     (source
      (origin
        (method git-fetch) ; no tests in PyPI
@@ -114,8 +114,14 @@ prefixing to determine WebSocket endpoints versus HTTP endpoints.")
              (commit version)))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "0x7w29qpj2acrzf8hcgymsyr5gk3aj2wkbvlwcr01ygd6as8h7hz"))))
+        (base32 "0lxq5l0729ms4xzbn1rq968qpi7ipa9aj1wjvzrpdxd3mmlg2618"))))
     (build-system pyproject-build-system)
+    (arguments
+     '(#:phases
+       (modify-phases %standard-phases
+         (add-before 'check 'delete-selenium-tests
+           (lambda* _
+             (delete-file "tests/sample_project/tests/test_selenium.py"))))))
     (propagated-inputs (list python-asgiref python-django))
     ;; Channels develops and maintains Daphne but any other ASGI server can be
     ;; used, so keep it in native-inputs for tests.
@@ -200,13 +206,13 @@ your project into different processes.")
 (define-public python-django
   (package
     (name "python-django")
-    (version "5.2.13")
+    (version "6.0.5")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "django" version))
        (sha256
-        (base32 "1i1vlffzhwbzp6r6y8ycvwklc45diy4c6i897z379l48a7dqj5d3"))))
+        (base32 "0saj5w1pmfl2bf6smmbx2h8v6b9n9djdsbp46v468a4ax5r6hvdw"))))
     (build-system pyproject-build-system)
     (arguments
      '(#:test-flags
@@ -374,28 +380,27 @@ and adapters that are useful for non-trivial configuration scenarios.")
 (define-public python-django-extensions
   (package
     (name "python-django-extensions")
-    (version "4.1")
+    (properties '((commit . "32ddfb0499bec7f39f9fbb44568d2781cecd1f32")
+                  (revision . "0")))
+    (version (git-version "4.1"
+                          (assoc-ref properties 'revision)
+                          (assoc-ref properties 'commit)))
     (source
      (origin
        (method git-fetch)
        ;; Fetch from the git repository, so that the tests can be run.
        (uri (git-reference
              (url "https://github.com/django-extensions/django-extensions")
-             (commit version)))
+             (commit (assoc-ref properties 'commit))))
        (file-name (string-append name "-" version))
        (sha256
-        (base32 "1qayan9za7ylvzkwp6p0l0735gavnzd1kdjsfc178smq6xnby0ss"))))
+        (base32 "09gk82rsmqgaz4pqk0xvb4mgfprls8h1wm24p74d0ykdi7li2plg"))))
     (build-system pyproject-build-system)
     (arguments
      (list
       ;; The 5 tests in test_dumbscript.py fail (OperationalError).
       #:test-flags
-      #~(list "--ignore" "tests/test_dumpscript.py"
-              "-k" (string-append
-                    ;; These fail for unknown reasons.
-                    "not test_do_export_emails_format_vcard_start"
-                    " and not test_initialize_runserver_plus"
-                    " and not test_should_highlight_python_syntax_with_name"))))
+      #~(list "--ignore" "tests/test_dumpscript.py")))
     (propagated-inputs
      (list python-django))
     (native-inputs
@@ -406,6 +411,8 @@ and adapters that are useful for non-trivial configuration scenarios.")
            python-pytest-django
            python-setuptools
            python-shortuuid
+           python-vobject
+           python-werkzeug
            tzdata-for-tests))
     (home-page "https://github.com/django-extensions/django-extensions")
     (synopsis "Custom management extensions for Django")

gnu/packages/python-check.scm

@@ -2246,18 +2246,21 @@ attachments).
 (define-public python-pyflakes
   (package
     (name "python-pyflakes")
-    (version "3.2.0")
+    (version "3.4.0")
     (source
      (origin
-       (method url-fetch)
-       (uri (pypi-uri "pyflakes" version))
+       (method git-fetch)
+       (uri (git-reference
+              (url "https://github.com/PyCQA/pyflakes")
+              (commit version)))
+       (file-name (git-file-name name version))
        (sha256
-        (base32 "0gxgz0kg008pgmjk1dn8z3g00dfa9pc3f80pm6r1yqjly4zn0q8w"))))
+        (base32 "0ag6j4flayslbxcqipmfy5njawzy66py71p63mpjsys4gy70jhg1"))))
     (build-system pyproject-build-system)
+    (arguments
+     (list #:test-backend #~'unittest))
     (native-inputs
-     (list python-pytest
-           python-setuptools
-           python-wheel))
+     (list python-setuptools))
     (home-page "https://github.com/PyCQA/pyflakes")
     (synopsis "Passive checker of Python programs")
     (description

gnu/packages/python-web.scm

@@ -2378,7 +2378,7 @@ for adding, removing and dropping callbacks.")
     (build-system pyproject-build-system)
     (arguments
      (list
-      ;; tests: 3045 passed, 32 skipped, 29 xfailed, 2 subtests passed
+      ;; tests: 3046 passed, 31 skipped, 29 xfailed, 2 subtests passed
       #:test-flags
       '(list
         "-o" "addopts=''"               ; Avoid -p pytest_cov.
@@ -2449,7 +2449,6 @@ for adding, removing and dropping callbacks.")
      (list gunicorn-bootstrap
            python-cython
            python-freezegun
-           python-isal
            python-pytest
            python-pytest-mock
            python-pytest-xdist
@@ -2761,12 +2760,12 @@ stream is an enhanced asynchronous iterable.")
 (define-public python-asgiref
   (package
     (name "python-asgiref")
-    (version "3.8.1")
+    (version "3.11.1")
     (source (origin
               (method url-fetch)
               (uri (pypi-uri "asgiref" version))
               (sha256
-               (base32 "146mhkn3zp2bqf7j6r3chdlvfzgs5x1lrnqahsllgjdyl20bshy3"))))
+               (base32 "1km4xlaa21z2h0gz8x84gfgrq8k2mhg48rc0hkz3wxky7g24s62z"))))
     (build-system pyproject-build-system)
     (native-inputs
      (list python-pytest

gnu/packages/python-xyz.scm

@@ -3732,23 +3732,31 @@ libraries to make them compatible with the Array API standard")
 (define-public python-array-api-strict
   (package
     (name "python-array-api-strict")
-    (version "2.4.1")
+    (version "2.5")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "array_api_strict" version))
        (sha256
-        (base32 "0k1v3h54y1yny8mhgwjk6p51zf87farfk1xn9842g5lcrfhxqxvc"))))
+        (base32 "1ig116ld5k8wx82ahld4l7qcb0d4s5s4f4a0nrflrh3hzabyarvp"))))
     (build-system pyproject-build-system)
     (arguments
      (list
-      ;; tests: 584 passed, 1 skipped, 2 deselected
+      ;; tests: 585 passed, 2 deselected
       #:test-flags
-      ;; ModuleNotFoundError: No module named 'numpy', not sure why?
-      #~(list "-k" (string-append "not test_disabled_extensions"
+      ;; hypothesis.errors.InvalidArgument:
+      ;; xp.__array_api_version__='2025.12', but it must be a valid version
+      ;; string ('2021.12', '2022.12', '2023.12', '2024.12'). If the standard
+      ;; version you want is not available, please ensure you're using the
+      ;; latest version of Hypothesis, then open an issue if one doesn't
+      ;; already exist.
+      #~(list "--ignore=array_api_strict/tests/test_set_functions.py"
+              ;; ModuleNotFoundError: No module named 'numpy', not sure why?
+              "-k" (string-append "not test_disabled_extensions"
                                   " and not test_environment_variables"))))
     (native-inputs
-     (list python-pytest
+     (list python-hypothesis
+           python-pytest
            python-setuptools
            python-setuptools-scm))
     (propagated-inputs
@@ -8944,16 +8952,20 @@ and convert DDL to BigQuery JSON schema.")
 (define-public python-jsonschema
   (package
     (name "python-jsonschema")
-    (version "4.23.0")
+    (version "4.26.0")
     (source
      (origin
-       (method url-fetch)
-       (uri (pypi-uri "jsonschema" version))
+       (method git-fetch)
+       (uri (git-reference
+              (url "https://github.com/Julian/jsonschema")
+              (commit (string-append "v" version))))
+       (file-name (git-file-name name version))
        (sha256
-        (base32 "1i3b4sckkc3v8vckqa11xbrj695qzrzsfzrkclra6lb3ybz9f56p"))))
+        (base32 "0p89jy7s1agi2zqrsdm56p843k847n9cixjsc12hnzscll37kysk"))))
     (build-system pyproject-build-system)
     (arguments
      (list
+      ;; tests: 7744 passed, 71 skipped
       #:phases
       #~(modify-phases %standard-phases
           (add-before 'check 'pre-check
@@ -8963,21 +8975,20 @@ and convert DDL to BigQuery JSON schema.")
      (list python-hatchling
            python-hatch-fancy-pypi-readme
            python-hatch-vcs
-           ;; For <tests/test_cli.py::TestCLIIntegration::test_license>.
-           python-pip
+           python-jsonpath-ng
            python-pytest))
     (propagated-inputs
      (list python-attrs
-           python-fqdn
-           python-idna
-           python-importlib-resources
-           python-isoduration
-           python-jsonpointer
            python-jsonschema-specifications
-           python-rfc3339-validator
-           python-rfc3986-validator
            python-referencing-bootstrap
            python-rpds-py
+           ;; [optional]
+           python-fqdn
+           python-idna
+           python-isoduration
+           python-jsonpointer
+           python-rfc3339-validator
+           python-rfc3986-validator
            python-uri-template
            python-webcolors))
     (home-page "https://github.com/Julian/jsonschema")
@@ -9315,7 +9326,8 @@ JavaScript-like message boxes.  Types of dialog boxes include:
            ;; See <https://github.com/pympler/pympler/issues/134>.
            "--deselect=test/muppy/test_summary.py::SummaryTest::test_repr_function"
            ;; This test times out.
-           "--deselect=test/gui/test_web.py::WebGuiTest::test_traceback")))
+           "--deselect=test/gui/test_web.py::WebGuiTest::test_traceback"
+           "--deselect=test/muppy/test_tracker.py::TrackerTest::test_otracker_diff")))
       (native-inputs
        (list python-pytest python-setuptools))
       (home-page "https://pythonhosted.org/Pympler/")
@@ -10044,13 +10056,13 @@ Google and Numpydoc format.")
 (define-public python-docutils
   (package
     (name "python-docutils")
-    (version "0.21.2")
+    (version "0.22.4")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "docutils" version))
        (sha256
-        (base32 "0vwqzbmzdvwx23myx4cg8s8mdkrqnfxpa9yi7jm2s66z5rrihsrs"))))
+        (base32 "0s4ryafs954ivgb7bifzpbv98vb2mcr0s8wi9nvwpglsvqgkpdad"))))
     (build-system pyproject-build-system)
     (arguments
      (list
@@ -11482,13 +11494,16 @@ For some datatypes the overhead can be reduced by using khash by factor 4-8.")
   ;; TODO: Move to python-build.
   (package
     (name "python-cython")
-    (version "3.1.7")
+    (version "3.2.5")
     (source
      (origin
-       (method url-fetch)
-       (uri (pypi-uri "cython" version))
+       (method git-fetch)
+       (uri (git-reference
+              (url "https://github.com/cython/cython")
+              (commit version)))
+       (file-name (git-file-name name version))
        (sha256
-        (base32 "0gaslzb3virk4v6yh5a7dp6ka1lm267v994g8r25lck1702vjy3g"))))
+        (base32 "07n0x4z0ifkhl8hi47amqhqfjc6jlh5dra9r54nlsnwnai83psy1"))))
     (build-system pyproject-build-system)
     (arguments
      (list
@@ -11496,17 +11511,16 @@ For some datatypes the overhead can be reduced by using khash by factor 4-8.")
       #:test-flags
       #~(list "runtests.py"
               "-vv"
-              "-j" (number->string (parallel-job-count))
+              ;; Some tests fail when number of cores are 24, keep on save
+              ;; minimal count.
+              "-j" (number->string (min 8 (parallel-job-count)))
               "-x" (string-join
                     (list "annotate_html"
                           "Debugger"
-                          ;; It introduces cycle.
-                          "numpy_test"
                           ;; It fails with AssertionError: Failed doctest test
                           ;; for complex_numbers_cpp.double_abs.
+                          ;; See: <https://github.com/cython/cython/issues/6528>.
                           "complex_numbers_cpp"
-                          ;; This test fails when running on 24 cores.
-                          "cpp_stl_conversion"
                           #$@(if (target-32bit?)
                                  ;; XXX: On 32-bit architectures, running the
                                  ;; parallel tests fails on many-core systems.
@@ -11533,8 +11547,7 @@ For some datatypes the overhead can be reduced by using khash by factor 4-8.")
               (setenv "HOME" "/tmp"))))))
     (native-inputs
      (list libxcrypt
-           python-setuptools
-           python-wheel))
+           python-setuptools))
     ;; we need the full python package and not just the python-wrapper
     ;; because we need libpython3.3m.so
     (inputs
@@ -11609,16 +11622,8 @@ def load_dynamic(name, path):
               ;; time of the test suite.
               (setenv "CFLAGS" "-O0"))))))))
 
-(define-public python-cython-next
-  (package
-    (inherit python-cython)
-    (version "3.2.2")
-    (source
-     (origin
-       (method url-fetch)
-       (uri (pypi-uri "cython" version))
-       (sha256
-        (base32 "0d0n0yyicr7icd4f5kn1wwbjqyad6j4m640xlqlk3ixchgad7bf3"))))))
+;; XXX: Deprecated on <2026-05-28>.
+(define-public python-cython-next python-cython)
 
 ;; NOTE: when upgrading numpy please make sure that python-numba,
 ;; python-pandas and python-scipy still build, as these three packages are
@@ -11626,49 +11631,41 @@ def load_dynamic(name, path):
 (define-public python-numpy
   (package
     (name "python-numpy")
-    (version "2.3.1")
+    (version "2.4.6")
     (source
      (origin
+       ;; XXX: When switching to Git it fails to find Numpy's fork of Meson
+       ;; git submodule -- <https://github.com/numpy/meson>.
        (method url-fetch)
        (uri (string-append
              "https://github.com/numpy/numpy/releases/download/v"
              version "/numpy-" version ".tar.gz"))
        (sha256
-        (base32 "0aqx8hsw54wfp7iv0h0ljlpsygvmrmi3rjic6rsa6v92lhhaxj8y"))))
+        (base32 "1nkx73blw298dzdk6blhrsann60cgdy7q6n3q9m785ia9865g8zk"))))
     (build-system pyproject-build-system)
     (arguments
      (list
-      ;; tests: 47513 passed, 1740 skipped, 33 xfailed, 5 xpassed, 341 warnings
+      ;; tests: 47255 passed, 1079 skipped, 32 xfailed, 2 xpassed, 318 warnings
       #:modules '((guix build utils)
                   (guix build pyproject-build-system)
                   (ice-9 format))
       #:test-flags
       #~(list "-m" "not slow"
-              "--numprocesses" (number->string (min 8 (parallel-job-count)))
-              ;; See: <https://github.com/numpy/numpy/issues/27531>,
-              ;;      <https://github.com/numpy/numpy/issues/17685>,
-              ;;      <https://github.com/numpy/numpy/issues/17635>.
-              "-k" "not test_api_importable")
+              "--numprocesses" (number->string (min 8 (parallel-job-count))))
       #:phases
       #~(modify-phases %standard-phases
           (add-after 'unpack 'fix-executable-paths
-            (lambda _
+            (lambda* (#:key inputs #:allow-other-keys)
               (substitute* "numpy/distutils/exec_command.py"
                 (("'/bin/sh'")
                  (format #f "~s" (which "bash"))))
               (substitute* "numpy/meson.build"
                 ;; Relay on python from the PATH instead of full reference
                 ;; stored in built wheel.
-                (("'py.full_path\\(\\)'") "'python'"))))
-          ;; This isn't architecture specific.
-          ;; TODO: Remove this conditional and apply for all builds.
-          #$@(if (target-ppc64le?)
-                 #~((add-after 'unpack 'patch-bin-true
-                      (lambda* (#:key inputs #:allow-other-keys)
-                        (substitute* "numpy/_core/tests/test_cpu_features.py"
-                          (("/bin/true")
-                           (search-input-file inputs "bin/true"))))))
-                 #~())
+                (("'py.full_path\\(\\)'") "'python'"))
+              (substitute* "numpy/_core/tests/test_cpu_features.py"
+                (("/bin/true")
+                 (search-input-file inputs "bin/true")))))
           (add-before 'build 'parallelize-build
             (lambda _
               (setenv "OMP_NUM_THREAD"
@@ -11688,7 +11685,7 @@ def load_dynamic(name, path):
                                  (string-split (getenv "CPLUS_INCLUDE_PATH") #\:))
                          ":")))))
           (add-before 'build 'configure-blas
-            (lambda* (#:key inputs #:allow-other-keys)
+            (lambda _
               (call-with-output-file "site.cfg"
                 (lambda (port)
                   (format port
@@ -11700,7 +11697,11 @@ include_dirs = ~:*~a/include~%" #$(this-package-input "openblas"))))))
             (lambda* (#:key tests? test-flags #:allow-other-keys)
               (when tests?
                 (with-directory-excursion #$output
-                  (apply invoke "pytest" test-flags)))))
+                  (apply invoke "pytest" test-flags)
+                  (let ((pytest-cache (string-append #$output
+                                                     "/.pytest_cache")))
+                    (when (access? pytest-cache X_OK)
+                      (delete-file-recursively pytest-cache)))))))
           ;; The executables provided by this package ('f2py' and 'numpy-config')
           ;; only depend on Python.  By customizing the wrap phase we can ensure
           ;; that we don't add all Python packages listed in native-inputs to
@@ -11717,12 +11718,14 @@ include_dirs = ~:*~a/include~%" #$(this-package-input "openblas"))))))
                        (find-files (in-vicinity #$output "/bin"))))))))
     (native-inputs
      (list gfortran
+           python-cython
            python-hypothesis
            python-meson
            python-pytest
-           python-pytest-xdist
-           python-setuptools
-           python-typing-extensions))
+           python-pytest-xdist))
+    (inputs
+     (list bash
+           openblas))
     (home-page "https://numpy.org")
     (synopsis "Fundamental package for scientific computing with Python")
     (description "NumPy is the fundamental package for scientific computing
@@ -13493,7 +13496,7 @@ Python list with elements of type @code{PIL.Image} (from the
 (define-public python-pillow
   (package
     (name "python-pillow")
-    (version "12.1.1")
+    (version "12.2.0")
     (source
      (origin
        (method git-fetch)
@@ -13502,7 +13505,7 @@ Python list with elements of type @code{PIL.Image} (from the
               (commit version)))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "1g374rklljx0941j6d1gib9pgcq3scmqw9psqaj2c7m8pilqsn9n"))))
+        (base32 "140ynzxpazq6gq041bhkzx314z4kkzv3wlmvph68a0nkj9nqa3pg"))))
     (build-system pyproject-build-system)
     (arguments
      (list
@@ -13543,7 +13546,7 @@ stored in a few basic pixel formats.  It should provide a solid foundation for
 a general image processing tool.")
     (properties `((cpe-name . "pillow")))
     (license (license:x11-style
-              "https://github.com/python-pillow/Pillow/blob/12.1.1/LICENSE"
+              "https://github.com/python-pillow/Pillow/blob/12.2.0/LICENSE"
               "MIT-CMU License"))))
 
 (define-public python-pillow-avif-plugin
@@ -15531,20 +15534,21 @@ to Python code.")
 (define-public python-asttokens
   (package
     (name "python-asttokens")
-    (version "3.0.0")
+    (version "3.0.1")
     (source
      (origin
-       (method url-fetch)
-       (uri (pypi-uri "asttokens" version))
-       (sha256
-        (base32 "1ixv6n8cg08n9h6rwyhd3lkzyjiwpbfv56dk338w3c32inm8pk8d"))))
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/gristlabs/asttokens")
+             (commit (string-append "v" version))))
+       (file-name (git-file-name name version))
+       (sha256 (base32 "1qqi7dygcv58czrsafc4gf41prfb6shd0crx33kd9wypk0v29afn"))))
     (build-system pyproject-build-system)
     (native-inputs
      (list python-astroid
            python-pytest
            python-setuptools
-           python-setuptools-scm
-           python-wheel))
+           python-setuptools-scm))
     (home-page "https://github.com/gristlabs/asttokens")
     (synopsis "Python library to annotate abstract syntax trees")
     (description "The @code{asttokens} module annotates Python abstract syntax
@@ -18122,14 +18126,16 @@ primary use case is APIs defined before keyword-only parameters existed.")
 (define-public python-pyasn1
   (package
     (name "python-pyasn1")
-    (version "0.6.1")
+    (version "0.6.3")
     (source
      (origin
-       (method url-fetch)
-       (uri (pypi-uri "pyasn1" version))
+       (method git-fetch)
+       (uri (git-reference
+              (url "https://github.com/pyasn1/pyasn1")
+              (commit (string-append "v" version))))
+       (file-name (git-file-name name version))
        (sha256
-        (base32
-         "0d5h500ig8sp72pabd1wcyglc4951xalbkqahf056dl4vlmhsn3g"))))
+        (base32 "0b22m94j163nikfkl031hgrfasb6wgqp3374b8dbr84jalkl0ykw"))))
     (build-system pyproject-build-system)
     (arguments
      (list #:test-backend #~'unittest
@@ -22747,20 +22753,22 @@ times.
 (define-public python-lazy-object-proxy
   (package
     (name "python-lazy-object-proxy")
-    (version "1.11.0")
+    (version "1.12.0")
     (source
      (origin
-       (method url-fetch)
-       (uri (pypi-uri "lazy_object_proxy" version))
+       (method git-fetch)
+       (uri (git-reference
+              (url "https://github.com/ionelmc/python-lazy-object-proxy")
+              (commit (string-append "v" version))))
+       (file-name (git-file-name name version))
        (sha256
-        (base32 "174fswfrsqr7yj72f8fyry34qxgagbfw37vzljxbp7schq8l91qq"))))
+        (base32 "1qig879igkjmj4mir26b0n40w3vn5jqn293172s6npxnb4k90kzk"))))
     (build-system pyproject-build-system)
     (native-inputs
      (list python-pytest
            python-pytest-benchmark
            python-setuptools
-           python-setuptools-scm
-           python-wheel))
+           python-setuptools-scm))
     (home-page "https://github.com/ionelmc/python-lazy-object-proxy")
     (synopsis "Lazy object proxy for Python")
     (description
@@ -24788,7 +24796,7 @@ instead of servers and network commands.")
 (define-public python-astroid
   (package
     (name "python-astroid")
-    (version "3.3.11")
+    (version "4.1.2")
     (source
      (origin
        (method git-fetch)
@@ -24797,24 +24805,12 @@ instead of servers and network commands.")
              (commit (string-append "v" version))))
        (file-name (git-file-name name version))
        (sha256
-        (base32 "1x5903kmi47pc87r949lym2cwl0xg885xyy730adxv0g6r083zwn"))))
+        (base32 "04x82slqxyyv0pikz680sw5aj2vbid1s7zdnzgqj7dlbz68c0ch0"))))
     (build-system pyproject-build-system)
-    (arguments
-     ;; UserWarning: pkg_resources is deprecated as an API. See
-     ;; https://setuptools.pypa.io/en/latest/pkg_resources.html. The
-     ;; pkg_resources package is slated for removal as early as
-     ;; 2025-11-30. Refrain from using this package or pin to Setuptools<81.
-     (list #:test-flags
-           #~(list "-k" "not test_identify_old_namespace_package_protocol")))
     (native-inputs
      (list python-mypy-minimal
            python-pytest
-           python-setuptools
-           python-wheel))
-    (propagated-inputs
-     (list python-lazy-object-proxy
-           python-typing-extensions
-           python-wrapt))
+           python-setuptools))
     (home-page "https://github.com/PyCQA/astroid")
     (synopsis "Python source code base representation")
     (description "@code{python-astroid} provides a common base representation
@@ -27930,26 +27926,23 @@ codecs for use in data storage and communication applications.")
 (define-public python-dill
   (package
     (name "python-dill")
-    (version "0.4.0")
+    (version "0.4.1")
     (source
      (origin
-       (method url-fetch)
-       (uri (pypi-uri "dill" version))
+       (method git-fetch)
+       (uri (git-reference
+              (url "https://github.com/uqfoundation/dill")
+              (commit version)))
+       (file-name (git-file-name name version))
        (sha256
-        (base32 "1w5w5hlijw7ahqji45ssyvdip5pv074h4nw97bsj8ws7vz9g2cq6"))))
+        (base32 "09ig6820sd68cjixl5vkwkwvvgdii8qhaikc1rxhabhwxfymc7v2"))))
     (build-system pyproject-build-system)
     (arguments
-     (list
-      #:phases #~(modify-phases %standard-phases
-                   (replace 'check
-                     (lambda* (#:key tests? #:allow-other-keys)
-                       (if tests?
-                           ;; Extracted from tox.ini
-                           (invoke "python" "dill/tests/__main__.py")
-                           (format #t "test suite not run~%")))))))
+     (list #:test-backend #~'custom
+           #:test-flags #~(list "dill/tests/__main__.py")))
     (native-inputs
-     (list python-setuptools python-wheel))
-    (home-page "https://pypi.org/project/dill/")
+     (list python-setuptools))
+    (home-page "http://dill.rtfd.io/")
     (synopsis "Serialize all of Python")
     (description "Dill extends Python's @code{pickle} module for serializing
 and de-serializing Python objects to the majority of the built-in Python
@@ -30911,14 +30904,20 @@ positioning, and keyboard input.")
 (define-public python-readme-renderer
   (package
     (name "python-readme-renderer")
-    (version "44.0")
+    (properties '((commit . "e603eb17fcabd6bd20706d278fc24a7e9a663190")
+                  (revision . "0")))
+    (version (git-version "44.0"
+                          (assoc-ref properties 'revision)
+                          (assoc-ref properties 'commit)))
     (source
      (origin
-       (method url-fetch)
-       (uri (pypi-uri "readme_renderer" version))
+       (method git-fetch)
+       (uri (git-reference
+              (url "https://github.com/pypa/readme_renderer")
+              (commit (assoc-ref properties 'commit))))
+       (file-name (git-file-name name version))
        (sha256
-        (base32
-         "1qfiqm3w1ydpbipns5nifa7h4wraxd72nh7imif819mzmd7064l7"))))
+        (base32 "15w3lzgg8gcq22saqy2cpnv3hvkrixhyn57fcg1p1bm2njh1hr61"))))
     (build-system pyproject-build-system)
     (arguments
      (list
@@ -33514,18 +33513,22 @@ systems in Python.")
 (define-public python-dotenv
   (package
     (name "python-dotenv")
-    (version "1.1.1")
+    (version "1.2.2")
     (source
      (origin
        (method url-fetch)
        (uri (pypi-uri "python_dotenv" version))
        (sha256
-        (base32 "1aw9c5gw2gfjf7n3s7k6lb6ybz090hh60wq0daz4azr52sbkk9m8"))))
+        (base32 "1wwwg7gasqmnv5y2hb3w1155c8nai6zzih8x5hn0ifnpzf8ildrc"))))
     (build-system pyproject-build-system)
+    (arguments
+     (list
+      #:test-flags
+      ;; .dotenv-real instead of dotenv
+      #~(list "-k not test_run_with_dotenv_and_command_flags")))
     (native-inputs
      (list python-pytest
-           python-setuptools
-           python-sh))
+           python-setuptools))
     (propagated-inputs
      (list python-click))
     (home-page "https://saurabh-kumar.com/python-dotenv/")
@@ -34614,19 +34617,22 @@ for styling strings in the terminal.")
 (define-public python-multipart
   (package
     (name "python-multipart")
-    (version "0.0.20")
-    (source (origin
-              (method url-fetch)
-              (uri (pypi-uri "python_multipart" version))
-              (sha256
-               (base32
-                "04wxzakk3hs4z4xf3ldhym3gm46hjicn4iwiw150c8wfbfscml4d"))))
+    (version "0.0.29")
+    (source
+     (origin
+       (method git-fetch)
+       (uri (git-reference
+              (url "https://github.com/Kludex/python-multipart")
+              (commit version)))
+       (file-name (git-file-name name version))
+       (sha256
+        (base32 "06rxa2xymdqri8zydy7xw2cnpsnzlv2jzdy9g86m5fpfca0pp9fm"))))
     (build-system pyproject-build-system)
     (native-inputs
      (list python-hatchling
            python-pytest
            python-pyyaml))
-    (home-page "https://github.com/andrew-d/python-multipart")
+    (home-page "https://github.com/Kludex/python-multipart")
     (synopsis "Streaming multipart parser for Python")
     (description
      "This package provides a streaming multipart parser for Python.")
@@ -35887,13 +35893,13 @@ line by line or column by column or a combination of both.")
 (define-public python-rpds-py
   (package
     (name "python-rpds-py")
-    (version "0.10.6")
+    (version "0.30.0")
     (source (origin
               (method url-fetch)
               (uri (pypi-uri "rpds_py" version))
               (sha256
                (base32
-                "0l5slkvhq2vf64mapimmj6ginsv01mc4niyj90vvz3assq4agrac"))))
+                "110y8k62b9xb3slny7gf89943xpbji3s7vl7yz0g0jh1j37zg3yx"))))
     (build-system cargo-build-system)
     (arguments
      (list
@@ -38393,18 +38399,32 @@ and @code{tokens_to_src} to roundtrip.")
 (define-public python-tomlkit
   (package
     (name "python-tomlkit")
-    (version "0.13.3")
+    (version "0.15.0")
     (source
      (origin
-       (method url-fetch)
-       (uri (pypi-uri "tomlkit" version))
+       (method git-fetch)
+       (uri (git-reference
+              (url "https://github.com/sdispater/tomlkit")
+              (commit version)))
+       (file-name (git-file-name name version))
        (sha256
-        (base32 "18fjmmhiv5jkkg1dwidmxd0sjqnkf675igizxsa2ppspxr3z4323"))))
+        (base32 "00sv5x8j78zkirzh9rl89lkpwfwhkhrq4mql2p4rqws1j37zx88g"))))
     (build-system pyproject-build-system)
+    (arguments
+     (list
+      #:phases
+      #~(modify-phases %standard-phases
+          ;; toml-test is submodule to
+          ;; <https://github.com/toml-lang/toml-test>.
+          (add-after 'unpack 'copy-toml-test-source
+            (lambda _
+              (copy-recursively
+               #$(package-source (this-package-native-input "toml-test"))
+               "tests/toml-test"))))))
     (native-inputs
      (list python-poetry-core
            python-pytest
-           python-pyyaml))
+           toml-test))
     (home-page "https://github.com/sdispater/tomlkit")
     (synopsis "Style-preserving TOML library")
     (description

gnu/packages/rust-crates.scm

@@ -747,6 +747,10 @@
   (crate-source "archery" "1.2.1"
                 "0sdqlmybcvd0rzv22ac3k3xxm5anr1gpm03sf02iy0jmrlhyvqpa"))
 
+(define rust-archery-1.2.2
+  (crate-source "archery" "1.2.2"
+                "07a4wn09ad1q7qi1bfdv03hl4668jaxm63rd6jxqgfzykpwsbq3h"))
+
 (define rust-archspec-0.1.3
   (crate-source "archspec" "0.1.3"
                 "1is6yjyk38hlijhp8yyk3xq3dgg5aass7rms5h6s2mjgrzcprdlx"))
@@ -3799,6 +3803,10 @@
   (crate-source "cc" "1.2.46"
                 "0diynsnlmw8fr032dxci5a79il5br2ws1l2a730v3cac0vhn6x5r"))
 
+(define rust-cc-1.2.48
+  (crate-source "cc" "1.2.48"
+                "0fk37741p34v904a49zcli9b65fmmir7sa06z3v95f6k1szvv0f4"))
+
 (define rust-cc-1.2.49
   (crate-source "cc" "1.2.49"
                 "05929ra8a2q81w45f932nr4blifnxkpr8i7lmcba28bm0c4k0n4h"))
@@ -24613,6 +24621,10 @@
   (crate-source "rpds" "1.1.0"
                 "194hjbsicmgqi3dyllqrz09mmhh597m2j9l49lr16cyfscambqd0"))
 
+(define rust-rpds-1.2.0
+  (crate-source "rpds" "1.2.0"
+                "0d7vpyignq837rh9wgcrq53xplsg5b85a3bcbq0x7m0rx22z8xcy"))
+
 (define rust-rpm-pkg-count-0.2.1
   (crate-source "rpm-pkg-count" "0.2.1"
                 "1jzh63l7k30l37s5gd2m2hvh8slzjaxw54s4xpcjnaqb8xfsq0sa"))
@@ -73510,42 +73522,32 @@
                                             rust-zerovec-0.10.4
                                             rust-zerovec-derive-0.10.3))
                      (python-rpds-py =>
-                                     (list rust-archery-1.2.1
-                                      rust-autocfg-1.4.0
-                                      rust-bitflags-2.9.0
-                                      rust-cfg-if-1.0.0
-                                      rust-indoc-1.0.9
-                                      rust-libc-0.2.171
-                                      rust-lock-api-0.4.12
+                                     (list rust-archery-1.2.2
+                                      rust-autocfg-1.5.0
+                                      rust-cc-1.2.48
+                                      rust-find-msvc-tools-0.1.5
+                                      rust-heck-0.5.0
+                                      rust-indoc-2.0.7
+                                      rust-libc-0.2.177
                                       rust-memoffset-0.9.1
                                       rust-once-cell-1.21.3
-                                      rust-parking-lot-0.12.3
-                                      rust-parking-lot-core-0.9.10
-                                      rust-proc-macro2-1.0.94
-                                      rust-pyo3-0.19.2
-                                      rust-pyo3-build-config-0.19.2
-                                      rust-pyo3-ffi-0.19.2
-                                      rust-pyo3-macros-0.19.2
-                                      rust-pyo3-macros-backend-0.19.2
-                                      rust-quote-1.0.40
-                                      rust-redox-syscall-0.5.10
-                                      rust-rpds-1.1.0
-                                      rust-scopeguard-1.2.0
-                                      rust-smallvec-1.15.0
-                                      rust-syn-1.0.109
-                                      rust-target-lexicon-0.12.16
-                                      rust-triomphe-0.1.14
-                                      rust-unicode-ident-1.0.18
-                                      rust-unindent-0.1.11
-                                      rust-windows-targets-0.52.6
-                                      rust-windows-aarch64-gnullvm-0.52.6
-                                      rust-windows-aarch64-msvc-0.52.6
-                                      rust-windows-i686-gnu-0.52.6
-                                      rust-windows-i686-gnullvm-0.52.6
-                                      rust-windows-i686-msvc-0.52.6
-                                      rust-windows-x86-64-gnu-0.52.6
-                                      rust-windows-x86-64-gnullvm-0.52.6
-                                      rust-windows-x86-64-msvc-0.52.6))
+                                      rust-portable-atomic-1.11.1
+                                      rust-proc-macro2-1.0.103
+                                      rust-pyo3-0.27.2
+                                      rust-pyo3-build-config-0.27.2
+                                      rust-pyo3-ffi-0.27.2
+                                      rust-pyo3-macros-0.27.2
+                                      rust-pyo3-macros-backend-0.27.2
+                                      rust-python3-dll-a-0.2.14
+                                      rust-quote-1.0.42
+                                      rust-rpds-1.2.0
+                                      rust-rustversion-1.0.22
+                                      rust-shlex-1.3.0
+                                      rust-syn-2.0.111
+                                      rust-target-lexicon-0.13.3
+                                      rust-triomphe-0.1.15
+                                      rust-unicode-ident-1.0.22
+                                      rust-unindent-0.2.4))
                      (python-rustworkx =>
                                        (list rust-adler2-2.0.1
                                         rust-aho-corasick-1.1.4