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54 Commits

Author SHA1 Message Date
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
Efraim Flashner
a0400dc9a5
gnu: python-pandas: Honor #:tests? flag. 
* gnu/packages/python-science.scm (python-pandas)[arguments]: Adjust
custom 'check phase to honor the #:tests? flag.
 2021-10-25 14:01:32 +03:00
Felix Gruber
942ce3376f
gnu: python-distributed: Update to 2021.09.1. 
* gnu/packages/python-science.scm (python-distributed): Update to
  2021.09.1.
  [arguments]: Disable failing test test_text.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-10-12 18:13:29 +02:00
Felix Gruber
32625fa69f
gnu: python-pandas: Update to 1.3.3. 
* gnu/packages/python-science.scm (python-pandas): Update to 1.3.3.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-10-12 18:13:28 +02:00
Ricardo Wurmus
3ee0b3ca56
gnu: python2-pandas: Fix build by reverting inherited fields. 
* gnu/packages/python-science.scm (python2-pandas)[arguments]: Do not inherit
field; revert to values at commit c0d43f6223.
[propagated-inputs]: Do not inherit.
[inputs]: Same.
[native-inputs]: Same.
 2021-09-29 23:43:32 +02:00
Ricardo Wurmus
042b6971d7
gnu: Add python-modin. 
* gnu/packages/python-science.scm (python-modin): New variable.
 2021-07-28 20:31:06 +02:00
Ricardo Wurmus
251bfbcfaa
gnu: Add python-distributed. 
* gnu/packages/python-science.scm (python-distributed): New variable.
 2021-07-28 20:31:06 +02:00
Ricardo Wurmus
3a150e9f12
gnu: python-pandas: Update to 1.3.0. 
* gnu/packages/python-science.scm (python-pandas): Update to 1.3.0.
[arguments]: Adjust check phase.
 2021-07-28 20:31:06 +02:00
Arun Isaac
5346e136fa
gnu: Add python-pingouin. 
* gnu/packages/python-science.scm (python-pingouin): New variable.
 2021-07-13 17:11:27 +05:30
Arun Isaac
f79fce7981
gnu: Add python-pandas-flavor. 
* gnu/packages/python-science.scm (python-pandas-flavor): New variable.
 2021-07-13 17:11:20 +05:30
Ludovic Courtès
6623d1cd7f
gnu: python-numpy, python-scipy: Remove dependency on lapack. 
The dependency on lapack was unused; the LAPACK interface of OpenBLAS is
used instead.  The dependency on lapack was added in
cba256f8fa (numpy) and
719b01c157 (scipy).

* gnu/packages/python-science.scm (python-scipy)[inputs]: Remove
LAPACK.
* gnu/packages/python-xyz.scm (python-numpy)[inputs]: Likewise.
 2021-06-22 17:55:05 +02:00
Ricardo Wurmus
b63cae13c1
gnu: Add python-ruffus. 
* gnu/packages/python-science.scm (python-ruffus): New variable.
 2021-06-14 23:13:56 +02:00
Paul Garlick
da340369ac
gnu: python-vedo: Make pkg-config a native input. 
* gnu/packages/python-science.scm (python-vedo)[inputs]: Move pkg-config to...
[native-inputs]: ...here.
 2021-06-02 10:27:59 +01:00
Paul Garlick
641a88e8c8
gnu: Add python-vedo. 
* gnu/packages/python-science.scm (python-vedo): New variable.
 2021-06-01 10:24:46 +01:00
Roel Janssen
47f31c0afe
gnu: Add python-pyflow. 
* gnu/packages/python-science.scm (python-pyflow): New variable.
 2021-05-31 09:30:51 +02:00
Vinicius Monego
0455c19fa5
gnu: python-scikit-image: Enable tests. 
* gnu/packages/python-science.scm (python-scikit-image)[arguments]: Add phases
related to tests.
[native-inputs]: Add python-codecov, python-flake8, python-pytest,
python-pytest-cov, python-pytest-localserver, python-wheel.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 13:56:07 +01:00
Vinicius Monego
36062f16b6
gnu: python-scikit-image: Update to 0.18.1. 
* gnu/packages/python-science.scm (python-scikit-image): Update to 0.18.1.
[propagated-inputs]: Remove python-six.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2021-03-13 13:55:15 +01:00
Ricardo Wurmus
456355c253
gnu: Add python-upsetplot. 
* gnu/packages/python-science.scm (python-upsetplot): New variable.
 2021-03-12 13:56:12 +01:00
Ricardo Wurmus
4d0fdde344
gnu: Add python-statannot. 
* gnu/packages/python-science.scm (python-statannot): New variable.
 2021-03-12 13:35:02 +01:00
Greg Hogan
2571cf025e
gnu: python-scipy: Update to 1.6.0. 
* gnu/packages/python-xyz.scm (python-scipy): Update to 1.6.0.
[inputs]: Add pybind11.
[arguments]<#:phases>['change-home-dir]: New phase.

Signed-off-by: Jelle Licht <jlicht@fsfe.org>
 2021-02-09 16:33:12 +01:00
Vinicius Monego
9e7382f865
gnu: Add python-baycomp. 
* gnu/packages/python-science.scm (python-baycomp): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2020-11-24 14:01:03 +01:00
Vinicius Monego
d2b014aab3
gnu: Add python-sgp4. 
* gnu/packages/python-science.scm (python-sgp4): New variable.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2020-08-16 09:42:36 +02:00
Vinicius Monego
47ad589f41
gnu: Add python-bottleneck. 
* gnu/packages/python-science.scm (python-bottleneck): New variable.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>
 2020-08-10 11:49:56 +02:00
Vinicius Monego
8bebb547d3
gnu: python-scikit-image: Add dependencies. 
* gnu/packages/python-science.scm (python-scikit-image)[propagated-inputs]: Add
python-imageio and python-tifffile.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2020-07-08 11:54:28 +02:00
Vinicius Monego
34432d5a78
gnu: Add python-scikit-fuzzy. 
* gnu/packages/python-science.scm (python-scikit-fuzzy): New variable.

Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
 2020-07-08 11:46:58 +02:00
Ricardo Wurmus
5db8ba1f49
gnu: Add python-msgpack-numpy. 
* gnu/packages/python-science.scm (python-msgpack-numpy): New variable.
 2020-06-23 23:15:54 +02:00
Ricardo Wurmus
4be49afabd
gnu: python-scikit-image: Update to 0.17.2. 
* gnu/packages/python-science.scm (python-scikit-image): Update to 0.17.2.
 2020-06-23 23:15:54 +02:00
Pierre Langlois
3417a25156
gnu: Add python-xarray. 
From 27ec21904f769c1e8114f767972d9037e1e9f68a Mon Sep 17 00:00:00 2001
From: Pierre Langlois <pierre.langlois@gmx.com>
Date: Thu, 18 Jun 2020 00:58:02 +0200
Subject: [PATCH 4/5] gnu: Add python-xarray.

* gnu/package/python-science.scm (python-xarray): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-06-22 15:44:14 +02:00
Pierre Langlois
20b545f768
gnu: python-pandas: Update to 1.0.5. 
But also keep version 0.25.3 around for packages requiring an earlier
versions, as well as version 0.24.2 for a version with python2.

* gnu/packages/python-science.scm (python-pandas): Update to 1.0.5.
[arguments]: Adapt 'patch-which phase.  Add new 'prepare-x phase.  Do not
delete tests that depend on "moto", they are skipped automatically.
[propagated-inputs]: Add python-jinja2.
[inputs]: Add xsel and xclip.
[native-inputs]: Add xorg-server-for-tests so we can test clipboard support.
(python-pandas-0.24): New variable.
(python2-pandas): Inherit from python-pandas-0.25.
* gnu/packages/bioinformatics.scm (python-biom-format)[propagated-inputs]:
Switch to python-pandas-0.25.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2020-06-22 15:44:08 +02:00
Ricardo Wurmus
ed33317893
gnu: Add python2-weave. 
* gnu/packages/python-science.scm (python2-weave): New variable.
 2020-04-30 13:08:33 +02:00
Marius Bakke
68cda767df
gnu: Remove python2-scikit-image. 
Some of the packages that this depends upon no longer supports Python 2.

* gnu/packages/python-science.scm (python2-scikit-image): Remove variable.
 2020-04-09 20:04:44 +02:00
Marius Bakke
3987715415
gnu: python2-pandas: Fix build with Python 2.7.17. 
While at it, fix the inheritance.

* gnu/packages/python-science.scm (python2-pandas): Use INHERIT instead of
PACKAGE/INHERIT.
[source](modules, snippet): New fields.
 2020-03-15 15:09:06 +01:00
Tobias Geerinckx-Rice
082c733c1d
gnu: python-scikit-image: Use HTTPS home page. 
* gnu/packages/python-science.scm (python-scikit-image)[home-page]: Use HTTPS.
 2020-02-19 23:48:15 +01:00