gnu: python-sbpy: Skip one doc test.

* gnu/packages/astronomy.scm (python-sbpy) [arguments] <test-flags>:
Skip one test.

Change-Id: Ie3c929d9367f596561f67e34f7bebf9024641654
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: scvelo: Update to 0.3.3.

* gnu/packages/bioinformatics.scm (scvelo): Update to 0.3.3.
[source]: Switch to git-fetch.
[arguments] <test-flags>: Run all tests in "tests/core"
<phases>: Remove 'matplotlib-compatibility; add 'set-version.

Change-Id: Iea4f9e9b7d385033b1131644c0145a5fdc3a7db7
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-hic2cool: Fix tests.

* gnu/packages/bioinformatics.scm (python-hic2cool) [arguments]
<test-backend, test-flags>: Use custom.

Change-Id: I1bfacc5b91a31e3bcd9434589d1d9e1a7b4d4076
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-hdf5storage: Use pythno-numpy@1.

* gnu/packages/python-xyz.scm (python-hdf5storage):
[propagated-inputs]: Remove python-numpy; add python-numpy-1.
[native-inputs]: Remove python-wheel.

Change-Id: I1d2e3d4d5b654e4025aa16f4d1aa9230c10a3e0a
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-dcor: Use python-numpy@1.

* gnu/packages/statistics.scm (python-dcor):
[propagated-inputs]: Remove python-numpy; add python-numpy-1.

Change-Id: Ida842dda2adea1e6a2085ae219b7e95988c14f85
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: coda: Use python-numpy@1.

* gnu/packages/maths.scm (coda):
[native-inputs]: Remove python-numpy; add python-numpy-1.

Change-Id: I1419ec3eb9cb4f25b1078908e305c99ec8bd59c4
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: dolphin-emu: Use python-numpy@1.

* gnu/packages/emulators.scm (dolphin-emu)[native-inputs]: Remove
python-numpy, add python-numpy-1.

Change-Id: I1693aa1af04d8c2abca4781b81143cb9a22275d8
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: Add python-statannotations.

* gnu/packages/statistics.scm (python-statannotations): New variable.

Change-Id: Ib8a51d7b63c9be9af2addf193c8241569c793569
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-scikit-surprise: Use python-numpy@1.

* gnu/packages/python-science.scm (python-scikit-surprise):
[propagated-inputs]: Remove python-numpy; add python-numpy-1.
[native-inputs]: Remove python-wheel.

Change-Id: I4ae8d087b602a04ff94ad1ef72c6ef0589938054
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-spisea: Use python-numpy@1.

* gnu/packages/astronomy.scm (python-spisea):
[propagated-inputs]: Remove python-numpy; add python-numpy-1.

Change-Id: Iab368ddefd7e73021e1377292afa9bfbd4ccba4d
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-pysynphot: Update to 2.0.0-1.a5e76c3.

* gnu/packages/astronomy.scm (python-pysynphot): Update to
a5e76c398f5b03192fa54659f81e7e1a929d9f7c commit.
[propagated-inputs]: Remove python-numpy; add python-numpy-1.
[native-inputs]: Remove python-wheel.

Change-Id: Ic2f211ff766291665fdc40df7d06884d22093f0b
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-paramz Move to machinve-learning.

* gnu/packages/python-science.scm (python-paramz): Move from here ...
* gnu/packages/machine-learning.scm: ... to here.

Change-Id: I128d863626a9b70bf31c37e200d40ad6ccd48ad2
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-gpy: Use python-numpy@1.

* gnu/packages/machine-learning.scm (python-gpy):
[propagated-inputs]: Remove python-numpy; add python-numpy-1.

Change-Id: Ie8740ce69188726c58b9a6ee753bdd3ac6b214a8
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-paramz: Use python-numpy@1.

* gnu/packages/python-science.scm (python-paramz):
[propagated-inputs]: Remove python-numpy; add python-numpy-1.

Change-Id: Ibc355d9a6e1ab635f63c21fe5e068a0ddfcc906a
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: rdkit: Use python-numpy@1.

* gnu/packages/chemistry.scm (rdkit)[propagated-inputs]: Remove
python-numpy; add python-numpy-1.

Change-Id: Iab529bb547832bd56040cf4ea1cc414b14c37dd2
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: boost-numpy: Use python-numpy@1.

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

Change-Id: I4ee9b625c69951099929873f2f7bbd7a7d0f6e29
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-scikit-learn-1.6: Skip 3 more tests.

* gnu/packages/machine-learning.scm (python-scikit-learn-1.6)[arguments]
<test-flags>: Skip 3 more tests.

Change-Id: I1c7e2eb7c18ddc5479cf45b84a6cf07d374842fe
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-vector: Update to 1.7.0.

* gnu/packages/python-science.scm (python-vector): Update to 1.7.0.
[propagated-inputs]: Add python-awkward, python-numba, and python-sympy.
[native-inputs]: Remove python-awkward and python-sympy; add python-notebook,
python-optree, and python-papermill.

Change-Id: I760c26d69b5a5e4530e80d8e57af65db2fdf319f
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-papermill: Reduce closure size; skip 2 tests.

The most of the native inputs were there to tests ignored tests, they
are removed now to reduce closure size.

* gnu/packages/jupyter.scm (python-papermill):
[arguments] <test-flags>: Skip 2 failing tests.
[native-inputs]: Remove python-boto3, python-botocore, python-ipython,
python-ipywidgets, python-moto, and python-requests.

Change-Id: I4c07a024a9514a44b5819196754e44ee86d47883
Signed-off-by: Rutherther <rutherther@ditigal.xyz>

gnu: python-glue-qt: Relax requirements for ipython version.

* gnu/packages/astronomy.scm (python-glue-qt):
[phases]{relax-requirements}: New phase.

Change-Id: I25ede5ae073ff7e5d568e99b29b15a95008a696f
Signed-off-by: Rutherther <rutherther@ditigal.xyz>