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86 Commits

Author SHA1 Message Date
Paul A. Patience
a15b769c2f
gnu: python-pyvista: Update to 0.35.1. 
* gnu/packages/python-science (python-pyvista): Update to 0.35.1.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2022-07-15 09:46:51 +01:00
Ricardo Wurmus
684c718e6a
gnu: Add python-opt-einsum. 
* gnu/packages/python-science.scm (python-opt-einsum): New variable.
 2022-07-08 18:41:35 +02:00
Antero Mejr
486251d440
gnu: Add python-deepdish. 
* gnu/packages/python-science.scm (python-deepdish): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-07-03 16:04:23 +02:00
Greg Hogan
e9e05dd129
gnu: python-modin: Update to 0.15.1. 
* gnu/packages/python-science.scm (python-modin): Update to 0.15.1.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-06-26 01:00:18 +02:00
Vinicius Monego
aa718586fa
gnu: python-scikit-image: Update to 0.19.3. 
* gnu/packages/python-science.scm (python-scikit-image): Update to 0.19.3.
 2022-06-18 13:07:09 -03:00
Eric Bavier
b68c87f86a
gnu: Add PyGLM. 
* gnu/packages/python-science.scm (python-pyglm): New variable.
 2022-06-08 23:27:47 -05:00
Maxim Cournoyer
30413f1180
gnu: Remove python2-scipy. 
* gnu/packages/python-science.scm (python2-scipy): Delete variable.
(python-scipy)[properties]: Delete field.
 2022-05-31 14:53:35 -04:00
Maxim Cournoyer
b827d0f7b3
gnu: Remove python2-weave. 
* gnu/packages/python-science.scm (python2-weave): Delete variable.
 2022-05-31 14:52:37 -04:00
Maxim Cournoyer
b3c7d69fa0
gnu: Remove python2-pandas. 
* gnu/packages/python-science.scm (python2-pandas): Delete variable.
(python-pandas): Delete related python2-variant property.
 2022-05-31 14:52:25 -04:00
Ricardo Wurmus
07909eb092
gnu: python-distributed: Update to 2022.05.2. 
* gnu/packages/python-science.scm (python-distributed): Update to 2022.05.2.
[arguments]: Remove 'sanity-check phase; adjust 'check phase.
[propagated-inputs]: Add python-urllib3.
[native-inputs]: Add python-pytest-timeout and python-flaky.
 2022-05-31 15:18:22 +02:00
Wiktor Zelazny
acb08304c8
gnu: Add python-gpy. 
* gnu/packages/python-science.scm (python-gpy): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-05-29 23:56:06 +02:00
Wiktor Zelazny
6400f08d07
gnu: Add python-paramz. 
* gnu/packages/python-science.scm (python-paramz): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-05-29 23:56:05 +02:00
Wiktor Zelazny
6dacd15381
gnu: Add python-climin. 
* gnu/packages/python-science.scm (python-climin): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-05-29 23:56:05 +02:00
Paul A. Patience
4ab5c8348d
gnu: Add python-pyvista. 
* gnu/packages/python-science.scm (python-pyvista): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-05-23 16:24:47 +02:00
Ricardo Wurmus
d1bdead838
gnu: Add python-aplus. 
* gnu/packages/python-science.scm (python-aplus): New variable.
 2022-05-20 20:42:53 +02:00
Maxim Cournoyer
cecf195347
gnu: python-pingouin: Update to 0.5.1. 
* gnu/packages/python-science.scm (python-pingouin): Update to 0.5.1.
 2022-05-12 12:46:06 -04:00
Maxim Cournoyer
c359a4fabb
gnu: python-pandas: Update to 1.4.2. 
* gnu/packages/python-science.scm (python-pandas): Update to 1.4.2.
 2022-05-12 12:45:55 -04:00
Maxim Cournoyer
8b390a8750
gnu: python-pandas: Build and run tests in parallel. 
* gnu/packages/python-science.scm (python-pandas)
[phases]{enable-parallel-build}: New phase.
{check}: Add xdist -n option.  Skip test_memory_usage test.
[native-inputs]: Add python-pytest-xdist.
 2022-05-12 12:45:55 -04:00
Maxim Cournoyer
cddedb9c5b
gnu: python-scipy: Update to 1.8.0 and enable parallel build. 
* gnu/packages/python-science.scm (python-scipy): Update to 1.8.0.
[modules]: New argument.
[phases]{disable-broken-tests}: Delete phase.
{configure-openblas}: Streamline configuration template.
{parallelize-build}: New phase.
{install-doc}: Move before 'check phase.  Remove now extraneous
'add-installed-pythonpath' call.  Remove the SPHINXBUILD and PYVER Make
variables, as well as conf.py patching.  Provide SPHINXOPTS to build doc in
parallel.  Simply recursively copy the 'html' output directory to install the
doc.
{check}: Remove extraneous INPUTS and OUTPUTS arguments.  Start tests with the
'runtests.py' launcher, which accepts a '-j' argument to run the tests in
parallel.
[native-inputs]: Sort inputs.  Add python-pytest-xdist and
python-threadpoolctl.
[home-page]: Update.
 2022-05-12 12:45:37 -04:00
Maxim Cournoyer
5a3634f461
gnu: python-scipy: Move input fields below arguments field. 
* gnu/packages/python-science.scm (python-scipy): Move inputs fields below the
arguments field.
[phases]: Use gexp.
{configure-openblas}: Use this-package-input.
{check}: Remove extraneous 'add-installed-pythonpath' call.
{install-doc}: Adjust accordingly.
 2022-05-12 12:45:36 -04:00
Paul A. Patience
e606e02844
gnu: python-vedo: Update to 2022.2.0. 
* gnu/packages/python-science.scm (python-vedo): Update to 2022.2.0.
[arguments]: Add 'fix-tests' phase.
[inputs]: Move fenics and python-matplotlib to propagated-inputs.
Move python-pkgconfig from here...
[native-inputs]: ...to here.
[propagated-inputs]: Add python-deprecated (and fenics and
python-matplotlib).
[description]: Make description more accurate.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-05-06 15:23:06 +02:00
Paul A. Patience
9edc0f3dbb
gnu: python-vedo: Disable sanity check. 
* gnu/packages/python-science.scm (python-vedo)[arguments]: Disable
sanity check.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-05-06 15:23:06 +02:00
Paul A. Patience
a5fec06868
gnu: python-vedo: Remove input labels. 
* gnu/packages/python-science.scm (python-vedo)[inputs]: Remove labels
and sort the inputs.
[propagated-inputs]: Remove labels.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-05-06 15:23:06 +02:00
Paul A. Patience
34f49d15e6
gnu: python-vedo: Honor #:tests? flag. 
* gnu/packages/python-science.scm (python-vedo)[arguments]: Adjust
custom 'check' phase to honor the #:tests? flag. Also remove its
trailing boolean.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-05-06 15:23:06 +02:00
Ricardo Wurmus
e47b080474
gnu: Add python-traittypes. 
* gnu/packages/python-science.scm (python-traittypes): New variable.
 2022-05-06 13:02:55 +02:00
Malte Frank Gerdes
b4b93035c1
gnu: Add python-trimesh. 
* gnu/packages/python-science.scm (python-trimesh): New variable.

Co-authored-by: Guillaume Le Vaillant <glv@posteo.net>
 2022-04-07 18:35:38 +02:00
Ricardo Wurmus
38b2026515
gnu: Add python-numpy-groupies. 
* gnu/packages/python-science.scm (python-numpy-groupies): New variable.
 2022-03-31 14:37:58 +02:00
Efraim Flashner
3e34b01b70
gnu: Add python-scikit-allel. 
* gnu/packages/python-science.scm (python-scikit-allel): New variable.
 2022-03-18 15:58:23 +02:00
Efraim Flashner
e4b91f10c8
gnu: python-scipy: Adjust phases. 
* gnu/packages/python-science.scm (python-scipy)[arguments]: Replace
'check with custom 'check phase.
 2022-03-17 14:51:38 +02:00
Vinicius Monego
2907c700eb
gnu: python-scikit-image: Update to 0.19.2. 
* gnu/packages/python-science.scm (python-scikit-image): Update to 0.19.2.
 2022-03-03 22:27:48 -03:00
Marius Bakke
2f6f9f2e54
gnu: python-scikit-image: Update to 0.19.1. 
* gnu/packages/python-science.scm (python-scikit-image): Update to 0.19.1.
[propagated-inputs]: Add PYTHON-PYTHRAN.
[native-inputs]: Remove PYTHON-CODECOV, PYTHON-FLAKE8, PYTHON-PYTEST-COV, and
PYTHON-WHEEL.
 2022-02-19 10:43:23 +01:00
Marius Bakke
fb84285b7a
gnu: Add python-pythran. 
* gnu/packages/python-science.scm (python-pythran): New variable.
 2022-02-19 10:43:23 +01:00
Marius Bakke
b2faad4bd0
gnu: python-upsetplot: Update to 0.6.0. 
* gnu/packages/python-science.scm (python-upsetplot): Update to 0.6.0.
[source](modules, snippet): New fields.
[arguments]: Remove obsolete phase.  Respect TESTS? in check phase.
 2022-01-22 10:23:00 +01:00
Marius Bakke
4f6cbc0aee
gnu: python-pandas: Remove old version. 
* gnu/packages/python-science.scm (python-pandas-0.25): Remove variable.
(python2-pandas): Inherit from PYTHON-PANDAS.
 2022-01-22 10:23:00 +01:00
Maxim Cournoyer
276f40fdc3
Merge branch 'version-1.4.0' 
With resolved conflicts in:
	gnu/packages/gnome.scm
	gnu/packages/openstack.scm
	gnu/packages/python-xyz.scm
 2022-01-17 11:47:09 -05:00
Maxim Cournoyer
836daaf8f6
gnu: python-pandas: Update to 1.3.5. 
* gnu/packages/python-science.scm (python-pandas): Update to 1.3.5.
[phases]{check}: Add a reference to the network accessing tests issue, now
reported upstream.  Reinstate the excelwriter tests.
[propagated-inputs]: Add python-xlsxwriter.
[native-inputs]: Remove python-nose.
 2022-01-10 11:47:02 -05:00
Marius Bakke
cdd0fcee8c
gnu: python-scikit-fuzzy: Disable tests. 
* gnu/packages/python-science.scm (python-scikit-fuzzy)[arguments]: Add
 #:tests?.  Remove #:phases.
 2022-01-12 23:50:17 +01:00
Marius Bakke
8622e0a721
gnu: python-modin: Permit newer versions of pandas. 
* gnu/packages/python-science.scm (python-modin)[arguments]: Add phase.
 2022-01-12 23:50:15 +01:00
Efraim Flashner
e8c1562599
gnu: python-scipy: Update to 1.7.3. 
* gnu/packages/python-science.scm (python-scipy): Update to 1.7.3.
[native-inputs]: Add python-pydata-sphinx-theme, python-sphinx-panels.
[arguments]: Add phase to build without python-pythran. Remove
trailing #t from phases.
* gnu/packages/sphinx.scm (python-pydata-sphinx-theme)[native-inputs]:
Remove python-plotly.
 2021-12-22 21:17:19 +02:00
Arun Isaac
e97197cccb
gnu: python-pingouin: Update to 0.5.0. 
* gnu/packages/python-science.scm (python-pingouin): Update to 0.5.0.
 2021-12-22 21:17:16 +02:00
Efraim Flashner
8e213a15d3
Revert "gnu: python-pingouin: Update to 0.5.0." 
This reverts commit f2ad33bc39.

python-pingouin after 0.3.12 needs newer versions of all the python
science libraries.
 2021-12-21 16:22:50 +02:00
Lars-Dominik Braun
08218fd7a4
gnu: python-pyflow: Rename to python2-pyflow. 
The package was never compatible with Python 3. Not adding a deprecated
package variant, because going from Python 3 to Python 2 is a breaking
change and it’s unlikely anyone ever used the package anyway (it was
likely broken).

* gnu/packages/python-science.scm (python-pyflow): Move…
(python2-pyflow): …here.
[arguments]: Use Python 2.
 2021-12-16 09:48:02 +01:00
Marius Bakke
95447b293d
gnu: python-distributed: Update to 2021.11.2. 
* gnu/packages/python-science.scm (python-distributed): Update to 2021.11.2.
[source](snippet): New field.
[arguments]: Add versioneer phase.
[native-inputs]: Add PYTHON-VERSIONEER.
 2021-12-13 23:28:58 +01:00
Ludovic Courtès
8394619bac
gnu: Simplify package inputs. 
This commit was obtained by running:

  ./pre-inst-env guix style

without any additional argument.
 2021-12-13 17:48:25 +01:00
Ricardo Wurmus
3ebcd637a5
gnu: python2-scipy: Override native inputs. 
* gnu/packages/python-science.scm (python2-scipy)[native-inputs]: Override;
replace gfortran with gfortran-7; add gcc-7.
 2021-12-09 11:17:45 +01:00
Ludovic Courtès
3a317f7476
Merge branch 'master' into core-updates-frozen 2021-11-17 23:43:14 +01:00
Arun Isaac
f2ad33bc39
gnu: python-pingouin: Update to 0.5.0. 
* gnu/packages/python-science.scm (python-pingouin): Update to 0.5.0.
 2021-11-15 17:19:52 +05:30
Ricardo Wurmus
078934bdd4
gnu: python-scipy: Run tests conditionally. 
* gnu/packages/python-science.scm (python-scipy)[arguments]: Respect TESTS? in
'CHECK phase.
 2021-11-15 11:46:23 +00:00
Efraim Flashner
4e4516599a
gnu: python-pandas: Update to 1.3.4. 
* gnu/packages/python-science.scm (python-pandas): Update to 1.3.4.
 2021-10-25 14:01:32 +03:00
Efraim Flashner
c8c35af8ac
gnu: python-pandas: Fix building with pytest-6. 
* gnu/packages/python-science.scm (python-pandas)[arguments]: In custom
'check phase adjust to not fail tests with missing test data.
 2021-10-25 14:01:32 +03:00