gnu: python-esutil: Fix build with gcc-14.

* gnu/packages/astronomy.scm (python-esutil)[arguments] <phases>: Add
relax-gcc-14-strictness.
[native-inputs]: Remove python-numpy and python-wheel.

Change-Id: I2e896fdc6250cd19e93a12017836da8c33de0be8
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-nox: Update to 2025.11.12.

* gnu/packages/python-check.scm (python-nox): Update to 2025.11.12.
[arguments] <test-flags>: Skip tests requiring uv.
[propagated-inputs]: Remove python-packaging and python-py; add
python-attrs, python-dependency-groups, and python-humanize.
[native-inputs]: Remove python-jinja2.

Change-Id: Ia310a49b1b76841e267c10a34549510880b1bbf0
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-ctapipe: Update to 0.28.0.

* gnu/packages/astronomy.scm (python-ctapipe): Update to 0.28.0.
[propagated-inputs]: Add python-iminuit.

Change-Id: Ia89035e67d99e99b4aa52b1d87077326a086b34f
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-cesium: Update to 0.12.4.

* gnu/packages/astronomy.scm (python-cesium): Update to 0.12.4.
[propagated-inputs]: Remove python-click.
[native-inputs]: Remove python-wheel.
[home-page]: Provide the one from project's README.
[description]: Add more details from home page.

Change-Id: Ief49f09dfa8375567ba3c91409b935b70dc28d2e
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: blender: Use python-numpy@1.

* gnu/packages/graphics.scm (blender)[inputs]: Remove python-numpy;
add python-numpy-1.

Change-Id: I0da2e589de939417d147875b909287d6d6d7ea40
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: checkm: Update to 1.2.4.

* gnu/packages/bioinformatics.scm (checkm): Update to 1.2.4.
[source] <pypi-uri>: Fix PyPI archive name.
[arguments] <tests?, test-flags>: Enable them.
[native-inputs]: Remove python-wheel.

Change-Id: I6486d073cbc50f005bf781b0a59a28b4f234c69d
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-blacksheep: Update to 2.4.5.

* gnu/packages/python-web.scm (python-blacksheep): Update to 2.4.5.
[propagated-inputs]: Add python-essentials, python-httptools, and python-rodi.

Change-Id: Id3ab94d587a46a99a1f85910ce2d60f7721816b3
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: didjvu: Update to 0.11.0.

* gnu/packages/djvu.scm (didjvu): Update to 0.11.0.
[arguments] <tests?, test-backend, test-flags>: Enable and provide
options to run unittest.
[phases]{configure}: Don't delete it.
{disable-failing-test}: Rework some problematic tests to be skipped.
[inputs]: Remove python-wrapper; add python-py3exiv2 and
python-xmp-toolkit.
[native-inputs]: Add boost and tzdata-for-tests.

Change-Id: I5132056c26a6f53229ddaf095b49427ec2ad6930
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: Add python-py3exiv2.

* gnu/packages/python-graphics.scm (python-py3exiv2): New variable.

Change-Id: I392753664c77d9930a72342d9c862fbdd727affd
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-guardpost: Update to 1.0.4.

* gnu/packages/python-web.scm (python-guardpost): Update to 1.0.4.
[propagated-inputs]: Add python-cryptography, python-essentials, and python-pyjwt.
[native-inputs]: Remove python-cryptography and python-pyjwt.

Change-Id: Ia527c00ac1224ded076679e3971c43d7f3482540
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-astroml: Fix build.

* gnu/packages/astronomy.scm (python-astroml)[arguments]<test-flags>:
Skip 2 more tests.
[native-inputs]: Remove python-pytest-cov and python-wheel; add
python-pytest, python-pytest-astropy, and python-setuptools.

Change-Id: I38df8b11f652713d961d792d36efca25bfd8140b
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-stwcs: Remove relax-requirements phase.

* gnu/packages/astronomy.scm (python-stwcs)[arguments]<phases>: Remove
'relax-requirements.

Change-Id: I7349cb56841adcf7e61c2d012d19d95f4b38bb5c
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-cloudpathlib: Fix tests.

* gnu/packages/python-web.scm (python-cloudpathlib)[native-inputs]:
Add python-psutil.

Change-Id: I2c13d89f7739f94ca5532188cafaba7d6b214f1d
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-algopy: Update to 0.7.2.

* gnu/packages/python-science.scm (python-algopy): Update to 0.7.2.
[native-inputs]: Remove python-wheel.

Change-Id: Ifac98dffd209bea3d50ef3ded0a0aee0a24faa8c
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-dendropy: Update to 5.0.8.

* gnu/packages/bioinformatics.scm (python-dendropy): Update to 5.0.8.
[arguments] <phases>: Remove python-compatibility.
[propagated-inputs]: Remove python-setuptools.
[native-inputs]: Remove python-wheel; add python-setuptools.

Change-Id: Id8cec99a2c15081334c6584b2868bb2c729b5409
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-django-ninja: Update to 1.5.1.

* gnu/packages/django.scm (python-django-ninja): Update to 1.5.1.

Change-Id: I992bd64d06366faf315bf673708983eaacaa2689
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-xmp-toolkit: Update to 2.1.0.

* gnu/packages/python-xyz.scm (python-xmp-toolkit): Update to 2.1.0.
[source]: Remove patch as applied upstream.
[arguments] <test-flags>: Run all tests.
<phases>: Remove 'configure-environment; add 'patch-source.
[native-inputs]: Remove python-setuptools and python-wheel; add
python-flit-core.

* gnu/packages/patches/python-xmp-toolkit-add-missing-error-codes.patch:
Delete file.
* gnu/local.mk (dist_patch_DATA): Deregister patch.

Change-Id: I3443ecd6ad2bd423544d06d1e6e0de7079ed6296
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-astropy-6: Skip some tests.

* gnu/packages/astronomy.scm (python-astropy-6)[arguments]: Substitute
from python-astropy and skip 4 more tests.

Change-Id: I14cd880c8428fd6ca90fb6f322e0fea08e8b5457
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-fastapi: Update to 0.124.0.

* gnu/packages/python-web.scm (python-fastapi): Update to 0.124.0.
[arguments] <test-flags>: Rework them, do not run tests on documentation
and toturials.
<phases>: Remove 'relax-requirements.
[propagated-inputs]: Add python-annotated-doc and
python-pydantic-extra-types.
[native-inputs]: Add python-anyio, python-types-orjson, and
python-types-ujson.

Change-Id: I699102d132838e3a8ac120063c6fdb89b25db89f
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: Add python-pydantic-extra-types.

* gnu/packages/python-xyz.scm (python-pydantic-extra-types): New variable.

Change-Id: I6603d0f0a5cbef6b4b9aede144623604ad5fbf37
Signed-off-by: Rutherther <rutherther@ditigal.xyz>