gnu: python-pyyaml: Update to 6.0.2.

* gnu/packages/python-xyz.scm (python-pyyaml): Update to 6.0.2.
  [build-system]: Use  pyproject.
  [native-inputs]: Add python-cython3, python-seuptools, python-pytest,
  and python-wheel.

Change-Id: Ic3d5cdc75650644831ad7192bc17427f9881f2e4

gnu: python-six: Do not inherit.

python-six-bootstrap is no longer required, this change removes it and
refactor python-six as a stand alone package.

* gnu/packages/python-build.scm (python-six-bootstrap): Remove variable.
* gnu/packages/python-xyz.scm (python-six): Do not inherit, re-use
package definition from python-six-bootstrap.
(python2-six) [native-inputs]: Add python-setuptools, and python-wheel.

Change-Id: Ia4abf667e0a2df65c171b3c8f5808d8e6d597b17

gnu: python-six-bootstrap: Update to 1.17.0.

* gnu/packages/python-build.scm (python-six-bootstrap): Update to 1.17.0.
  [build-system]: Use pyproject.
  [native-inputs]: Add python-setuptools.

Change-Id: I3d673d13efe60d90221061759e4ea90fd4164882

gnu: Pin some packages to python-cython-0.

* gnu/packages/audio.scm (python-pyliblo):
  [native-inputs]: Remove python-cython; add python-cython-0.
* gnu/packages/bioinformatics.scm (python-pysam): Likewise.
* gnu/packages/parallel.scm (openpmix): Likewise.
* gnu/packages/python-science.scm (python-scipy): Likewise.

Change-Id: I7a02d39b7d7cbb8a40ab4434bfe90d4e944433d3

gnu: python-cython-0: Update to 0.29.37.

* gnu/packages/python-xyz.scm (python-cython-0): Update to 0.29.37.
  Use G-expressions.
  [build-system]: Inherit pyproject form python-cython.
  [arguments] <test-backend>: Use 'custom; <test-flags>: Utilize it
  instead of overwriting 'check phase.
  <phases>: Add 'pre-check; use default 'check.
  [inputs]: Inherit from python-cython.
  [native-inputs]: Likewise.
  [home-page]: Likewise.
  [synopsis]: Likewise.
  [description]: Likewise.

Change-Id: I97e8662f0a53aa9bc702b835a347900c7ebd5ea1

gnu: python-cython: Fix tests on i686-linux.

* gnu/packages/python-xyz.scm (python-cython):
  [arguments] <test-backend>: Use 'custom.
  <test-flags>: Skip one test on i686-linux.
  <phases>: Use default 'check; add 'pre-check.

Change-Id: Ia2aa75cf341f9db043c2c2bc99ed56ef6816ca21

gnu: python-cython: Build with gcc@14.

* gnu/packages/python-xyz.scm (python-cython):
  [native-inputs]: Remove (cond ((target-x86-32?) gcc-11) (else gcc-13)).

Change-Id: I04ff6694a147d73beda119231d5a79579cf01c82

gnu: python-cython: Set default to v3.

* gnu/packages/python-xyz.scm (python-cython): Overwrite with
python-cython-3 and making it a default.
(python-cython-0): New variable, copy of python-cython@0.23.32.
(python-cython-3): Set to python-cython.

Change-Id: I6af9caeb77cd0be352b814baae7e37c2eafb00e7

gnu: python-cython-3: Update to 3.1.2.

* gnu/packages/python-xyz.scm (python-cython-3): Update to 3.1.2.

Change-Id: I0cfe7d6bfdc2df37fd9309ae39c09674f616dee2
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>

gnu: python-pytest: Update to 8.4.1.

* gnu/packages/check.scm (python-pytest): Update to 8.4.1.
  [arguments] <test-flags>: Skip only 2 tests.
  [propagated-inputs]: Remove python-attrs-bootstrap,
  python-exceptiongroup, python-py, and python-tomli; add
  python-pygments-bootstrap.
  [native-inputs]: Remove python-nose and python-pytest-bootstrap; add
  python-attrs-bootstrap.

Change-Id: Ib13c2578cc5fdd8508a83ed97ea2471ab756f541

gnu: python-elementpath: Enable tests.

* gnu/packages/xml.scm (python-elementpath): Enable tests.
[arguments] <test-backend>: Use 'unittest.
<phases>: Add 'set-locales.
[native-inputs]: Add glibc-locales, python-lxml, and
python-xmlschema-bootstrap.

Change-Id: I9a48dc1e508a6701472890a17a3ed0cf95d051a8

gnu: Add python-xmlschema-bootstrap.

* gnu/packages/xml.scm (python-xmlschema-bootstrap): New variable.

Change-Id: I2b5ae32a3157c57a8e89a2d14b314404043a0a5c

gnu: python-xmlschema: Update to 4.1.0.

* gnu/packages/xml.scm (python-xmlschema): Update to 4.1.0.
[build-system]: Use pyproject.
[arguments] <test-backend>: Use 'unittest.
<phases>: Use default 'check.
[native-inputs]: Add python-setuptools.

Change-Id: Ia7fd7d8af9981e19566be05d85cf8288a772a7e9

gnu: python-elementpath: Update to 5.0.4.

* gnu/packages/xml.scm (python-elementpath): Update to 5.0.4.
[build-system]: Use pyproject.
[native-inputs]: Add python-setuptools.

Change-Id: I03f0a0c46644946370694fceb3a68c3c03dccb59

gnu: python-hypothesis: Update to 6.135.26.

* gnu/packages/check.scm (python-hypothesis): Update to 6.135.26.
  [build-system]: Use pyproject
  [arguments] <phases>: Keep 'sanity-check.
  [native-inputs]: Add python-setuptools, and python-wheel.

Change-Id: I306fd548268da91b2e86d2ca214771126331e0d1

gnu: python-exceptiongroup: Update to 1.3.0.

* gnu/packages/python-build.scm (python-exceptiongroup): Update to 1.3.0.
  [build-system]: Use pyproject.
  [arguments] <build-backend>: Use 'setuptools.bulid_meta' propagated by
  flit_scm.
  <phases>: Use default 'build, 'install and 'check; add 'set-version.
  [propagated-inputs]: Add python-typing-extensions.
  [native-inputs]: Remove python-pypa-build.

Change-Id: I400165688236086ad85d961698e14d8ed8dd486f

gnu: python-sortedcontainers: Switch to pyproject, enable tests.

* gnu/packages/python-xyz.scm (python-sortedcontainers):
  [source]: Switch to git-fetch containing tests.
  [build-system]: Use pyproject.
  [arguments] <tests?>: Now enable them.
  [native-inputs]: Add python-pytest-bootstrap and python-setuptools.

Change-Id: Ibce0dd93d964853e734424e029f9197e67f1f828

gnu: python-flit-scm: Improve package.

Reduce closure size by removing redundant python-setuptools and
python-wheel as it was a workaround import issue which was resolved by
using flit_core.buildapi directly.

* gnu/packages/python-build.scm (python-flit-scm): Fix indentation.
  [arguments] <build-backend>: Let it auto detect.
  <phases>: Add 'fix-backend.
  [native-inputs]: Remove python-setuptools and python-wheel.

Change-Id: Ib3f591365411ba5f8b710a8256a324dfb7d5b565

gnu: python-hatch-fancy-pypi-readme: Update to 25.1.0.

* gnu/packages/python-build.scm (python-hatch-fancy-pypi-readme): Update to 25.1.0.
[propagated-inputs]: Remove python-typing-extensions.

Change-Id: Iaa5d2e74d2da831af31f7205b4cf98ad2b816e22

gnu: python-typing-extensions: Update to 4.15.0.

* gnu/packages/python-build.scm (python-typing-extensions): Update to 4.15.0.

Change-Id: I1a218c75a41539902a34c53d465535d5856674e0