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Author SHA1 Message Date
Arun Isaac
d4e9ad2d42
gnu: python-pandas-flavor: Update to 0.5.0. 
* gnu/packages/python-science.scm (python-pandas-flavor): Update to 0.5.0.
[propagated-inputs]: Add python-lazy-loader and python-packaging.
[home-page]: Update.
 2023-06-29 17:01:56 +01:00
Ricardo Wurmus
2a7ca17068
gnu: python-distributed: Disable timeout test. 
* gnu/packages/python-science.scm (python-distributed)[arguments]: Disable
test_nanny_timeout, because it times out.
 2023-06-29 12:01:22 +02:00
Paul A. Patience
5cf9880dd4
gnu: python-trimesh: Update to 3.22.1. 
* gnu/packages/python-science.scm (python-trimesh): Update to 3.22.1.
[arguments]<#:phases>: Update path in 'fix-build' phase.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-06-25 23:46:03 +02:00
Vinicius Monego
cbcab52fd1
gnu: Add python-pytensor. 
* gnu/packages/python-science.scm (python-pytensor): New variable.
 2023-06-25 10:48:05 -03:00
Vinicius Monego
a38f5a71ad
gnu: Add python-xarray-einstats. 
* gnu/packages/python-science.scm (python-xarray-einstats): New variable.
 2023-06-25 10:43:22 -03:00
Vinicius Monego
b08a1f3ce1
gnu: python-xarray: Update to 2023.6.0. 
* gnu/packages/python-science.scm (python-xarray): Update to 2023.6.0.
[build-system]: Switch to pyproject-build-system.
[arguments]: Do not override the check phase.
 2023-06-25 10:43:22 -03:00
Vinicius Monego
6bc2fbc14c
gnu: Add python-einops. 
* gnu/packages/python-science.scm (python-einops): New variable.
 2023-06-25 10:43:22 -03:00
Paul A. Patience
24fc0d506a
gnu: python-pyvista: Update to 0.39.1. 
* gnu/packages/python-science.scm (python-pyvista): Update to 0.39.1.
[propagated-inputs]: Add python-pooch, remove python-appdirs.

Signed-off-by: Christopher Baines <mail@cbaines.net>
 2023-06-20 22:16:14 +01:00
Ricardo Wurmus
4557c83a7d
gnu: python-distributed: Update to 2023.4.1. 
* gnu/packages/python-science.scm (python-distributed): Update to 2023.4.1.
[source]: Remove snippet.
[arguments]: Update build phase 'versioneer; restore 'sanity-check phase;
simplify custom 'check phase; add 'fix-pytest-config phase; use #:test-flags.
[build-system]: Use pyproject-build-system.
[native-inputs]: Add python-importlib-metadata.
 2023-05-11 15:59:22 +02:00
Ricardo Wurmus
96c51a9dbf
gnu: python-scikit-optimize: Fix build with newer numpy and sklearn. 
* gnu/packages/patches/python-scikit-optimize-1148.patch,
gnu/packages/patches/python-scikit-optimize-1150.patch: New patches.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/python-science.scm (python-scikit-optimize)[source]: Fetch with
git and apply patches.
 2023-05-10 19:27:07 +02:00
Efraim Flashner
12c529c071
gnu: python-bottleneck: Honor #:tests? flag. 
* gnu/packages/python-science.scm (python-bottleneck)[arguments]: Adjust
custom 'check phase to honor the #:tests? flag.
 2023-05-08 12:42:10 +03:00
Efraim Flashner
4a23812c7c
gnu: python-bottleneck: Update to 1.3.7. 
* gnu/packages/python-science.scm (python-bottleneck): Update to 1.3.7.
 2023-05-08 12:42:09 +03:00
Ricardo Wurmus
5409ae48af
gnu: python-distributed: Fix build. 
* gnu/packages/python-science.scm (python-distributed)[build-system]: Use
pyproject-build-system.
[arguments]: Hide deprecation warnings from tornado, because they break almost
all tests; disable three more tests.
 2023-04-26 11:17:41 +02:00
Maxim Cournoyer
3bacd3c76a
Merge branch 'master' into core-updates. 
Conflicts:
	gnu/local.mk
	gnu/packages/build-tools.scm
	gnu/packages/certs.scm
	gnu/packages/check.scm
	gnu/packages/compression.scm
	gnu/packages/cups.scm
	gnu/packages/fontutils.scm
	gnu/packages/gnuzilla.scm
	gnu/packages/guile.scm
	gnu/packages/ibus.scm
	gnu/packages/image-processing.scm
	gnu/packages/linux.scm
	gnu/packages/music.scm
	gnu/packages/nss.scm
	gnu/packages/pdf.scm
	gnu/packages/python-xyz.scm
	gnu/packages/qt.scm
	gnu/packages/ruby.scm
	gnu/packages/shells.scm
	gnu/packages/tex.scm
	gnu/packages/video.scm
	gnu/packages/vulkan.scm
	gnu/packages/web.scm
	gnu/packages/webkit.scm
	gnu/packages/wm.scm
 2023-04-14 17:15:08 -04:00
Maxim Cournoyer
a3bfb86738
gnu: python-scipy: Update to 1.10.1. 
* gnu/packages/python-science.scm (python-scipy): Update to 1.10.1.
[build-system]: Use pyproject-build-system.
[arguments]: Add #:build-backend argument.
Remove loosen-requirements, build and install phases.
[native-inputs]: Remove python-pypa-build.
 2023-04-11 17:22:35 -04:00
Ricardo Wurmus
896982f357
gnu: python-scikit-allel: Use pyproject-build-system. 
* gnu/packages/python-science.scm (python-scikit-allel): Move up to create
alphabetic order.
[build-system]: Use pyproject-build-system.
[arguments]: Provide test flags instead of overriding 'check phase; split out
build step into new 'build-ext phase.  Disable roh_mhmm tests.
 2023-03-24 18:23:01 +01:00
Ricardo Wurmus
6d132c5ebf
gnu: Add python-scikit-optimize. 
* gnu/packages/python-science.scm (python-scikit-optimize): New variable.
 2023-03-24 18:03:30 +01:00
Lars-Dominik Braun
34f684371e
gnu: Add python-libneuroml. 
* gnu/packages/python-science.scm (python-libneuroml): New variable.
 2023-03-21 13:58:42 +01:00
Lars-Dominik Braun
9f882daf11
gnu: Add python-pylems. 
* gnu/packages/python-science.scm (python-pylems): New variable.
 2023-03-21 13:56:47 +01:00
Antero Mejr
e24b9b42bc
gnu: Add python-pydicom. 
* gnu/packages/python-science.scm (python-pydicom): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2023-01-08 16:11:45 +01:00
Sharlatan Hellseher
7f380a2e26
gnu: python-sgp4: Move to astronomy. 
* gnu/packages/astronomy.scm: (python-sgp4): Move here from python-science.scm.
  [description]: Expand description, annotate acronyms, add link to CelesTrak.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-12-05 22:22:20 +01:00
Sharlatan Hellseher
6468d9c131
gnu: python-sgp4: Update to 2.21. 
The latest version passes build on aarch64-linux system.

* gnu/packages/python-science.scm (python-sgp4): Update to 2.21.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-12-05 22:22:20 +01:00
Navid Afkhami
9ddc4e5b03
gnu: python-msgpack-numpy: Update to 0.4.8. 
* gnu/packages/python-science.scm (python-msgpack-numpy): Update to 0.4.8.
 2022-12-02 15:04:15 +01:00
Navid Afkhami
ba8679fb24
gnu: Add python-tspex. 
* gnu/packages/python-science.scm (python-tspex): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2022-11-11 12:12:04 +01:00
Ricardo Wurmus
b19c12c2d7
gnu: Add python-pyts. 
* gnu/packages/python-science.scm (python-pyts): New variable.
 2022-11-04 19:53:31 +01:00
jgart
70cac2829f
gnu: Add python-simple-pid. 
* gnu/packages/python-science.scm (python-simple-pid): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2022-10-18 14:41:10 +02:00
Marius Bakke
f66067febc
Merge branch 'master' into staging 2022-09-29 07:26:37 +02:00
Guillaume Le Vaillant
05c13b3149
gnu: Add python-simplespectral. 
* gnu/packages/python-science.scm (python-simplespectral): New variable.
 2022-09-28 11:31:49 +02:00
Maxim Cournoyer
3c6e220d81
Merge branch 'master' into staging. 
With resolved conflicts in:
	gnu/local.mk
	gnu/packages/crates-io.scm
 2022-09-27 14:27:28 -04:00
Ricardo Wurmus
ab6931483b
gnu: Add python-vaex-core. 
* gnu/packages/python-science.scm (python-vaex-core): New variable.
 2022-09-25 21:24:34 +02:00
Marius Bakke
2266ec5eb1
gnu: python-cython: Remove duplicate version. 
* gnu/packages/python-xyz.scm (python-cython-0.29.32): Remove variable.
* gnu/packages/python-science.scm (python-pandas)[native-inputs]: Change from
PYTHON-CYTHON-0.29.32 to PYTHON-CYTHON.
 2022-09-18 16:26:18 +02:00
Marius Bakke
ce3b51a4c6
gnu: python-pandas: Update to 1.4.4. 
* gnu/packages/python-science.scm (python-pandas): Update to 1.4.4.
[native-inputs]: Change from PYTHON-CYTHON to PYTHON-CYTHON-0.29.32.
 2022-09-18 16:18:36 +02:00
Marius Bakke
888dfc8eb6
gnu: python-scipy: Update to 1.9.1. 
* gnu/packages/python-science.scm (python-scipy): Update to 1.9.1.
[source]: Switch to GIT-FETCH.
[outputs]: Remove.
[arguments]: Don't disable Pythran.  Don't configure OpenBLAS which is now
discovered by pkg-config.  Do a "manual" PEP 517 style build.  Make
install-doc phase conditional on the presence of Sphinx.  Simplify tests.
[propagated-inputs]: Add PYTHON-PYTHRAN.
[native-inputs]: Remove PERL, WHICH, PYTHON-NUMPYDOC,
PYTHON-PYDATA-SPHINX-THEME, PYTHON-SPHINX, and PYTHON-SPHINX-PANELS.  Add
GCC, PKG-CONFIG, PYTHON-PYPA-BUILD and PYTHON-MESON.
 2022-09-16 18:42:21 +02:00
Marius Bakke
8bd7cd34bf
gnu: python-pingouin: Don't pin scikit-learn version. 
* gnu/packages/python-science.scm (python-pingouin)[arguments]: Add phase.
 2022-09-14 21:08:34 +02:00
Marius Bakke
e3ed1d09f9
gnu: python-pingouin: Update to 0.5.2. 
* gnu/packages/python-science.scm (python-pingouin): Update to 0.5.2.
[arguments]: Adjust outdated substitution.
 2022-09-11 23:41:51 +02:00
Christopher Baines
ad1d3f98b1
gnu: Add comments to the bottom of a few package modules. 
This will hopefully discourage patches which add new packages to the bottom of
files, as this increases the likelihood of conflicts when applying patches.

If there are more specific ways that packages should be arranged in specific
modules, this message can be updated accordingly.

* gnu/packages/bioconductor.scm: Add comment discouraging adding packages to
the bottom of the file.
* gnu/packages/bioinformatics.scm: ditto.
* gnu/packages/cran.scm: ditto.
* gnu/packages/crates-io.scm: ditto.
* gnu/packages/emacs-xyz.scm: ditto.
* gnu/packages/golang.scm: ditto.
* gnu/packages/guile-xyz.scm: ditto.
* gnu/packages/haskell-xyz.scm: ditto.
* gnu/packages/java.scm: ditto.
* gnu/packages/julia-xyz.scm: ditto.
* gnu/packages/lisp-xyz.scm: ditto.
* gnu/packages/ocaml.scm: ditto.
* gnu/packages/perl.scm: ditto.
* gnu/packages/python-science.scm: ditto.
* gnu/packages/python-xyz.scm: ditto.
* gnu/packages/ruby.scm: ditto.
* gnu/packages/tex.scm: ditto.
 2022-09-10 10:45:27 +01:00
Paul A. Patience
29491482a1
gnu: python-pyvista: Update to 0.36.1. 
* gnu/packages/python-science.scm (python-pyvista): Update to 0.36.1.

Signed-off-by: Marius Bakke <marius@gnu.org>
 2022-09-07 22:02:40 +02:00
Paul A. Patience
7e13054373
gnu: python-pyvista: Update to 0.35.2. 
* gnu/packages/python-science.scm (python-pyvista): Update to 0.35.2.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
 2022-08-02 20:59:15 +03:00
Ricardo Wurmus
4bc130dcc0
gnu: Add python-geosketch. 
* gnu/packages/python-science.scm (python-geosketch): New variable.
 2022-08-02 14:37:38 +02:00
Ricardo Wurmus
d4b0dc047f
gnu: Add python-fbpca. 
* gnu/packages/python-science.scm (python-fbpca): New variable.
 2022-08-02 14:37:38 +02:00
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