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[bug#53402] Update dependencies and rebase on newer work

Message ID 3bfd0e42807f6728bbf8cd43212727eb840cdee3.camel@planete-kraus.eu
State New
Headers show
Series [bug#53402] Update dependencies and rebase on newer work | expand

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Commit Message

Vivien Kraus May 26, 2022, 9:24 p.m. UTC 
Dear guix,

Since I made the last update to this series, someone did work in the
python science packages and I had to publish a new rebase of my work,
discarding duplicate packaging efforts. I also used that opportunity to
update my dependencies.

Could you publish the new rebase in a new branch? Previously, nckx did
it to wip-python-mne. It was of great help to me because I can use the
branch in gitlab CI without having to patch and rebuild guix in the
pipeline. It would be wiser to use a new branch, based on master.

Thank you for the time you already spent helping me.

Best regards,

Vivien
diff mbox series

Patch

From ed24fd862a0a9bd06ecc3a25dd4c2c6542226252 Mon Sep 17 00:00:00 2001
From: Vivien Kraus <vivien@planete-kraus.eu>
Date: Thu, 20 Jan 2022 23:21:25 +0100
Subject: [PATCH v6 28/28] gnu: Add python-mne.

* gnu/packages/python-science.scm (python-mne): New variable.
---
 gnu/packages/python-science.scm | 65 +++++++++++++++++++++++++++++++++
 1 file changed, 65 insertions(+)

diff --git a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm
index 78ef733750..ef0b7f2cd7 100644
--- a/gnu/packages/python-science.scm
+++ b/gnu/packages/python-science.scm
@@ -46,6 +46,7 @@  (define-module (gnu packages python-science)
   #:use-module (gnu packages databases)
   #:use-module (gnu packages gcc)
   #:use-module (gnu packages image-processing)
+  #:use-module (gnu packages jupyter)
   #:use-module (gnu packages machine-learning)
   #:use-module (gnu packages maths)
   #:use-module (gnu packages mpi)
@@ -57,6 +58,7 @@  (define-module (gnu packages python-science)
   #:use-module (gnu packages python-check)
   #:use-module (gnu packages python-web)
   #:use-module (gnu packages python-xyz)
+  #:use-module (gnu packages qt)
   #:use-module (gnu packages simulation)
   #:use-module (gnu packages sphinx)
   #:use-module (gnu packages statistics)
@@ -1636,3 +1638,66 @@  (define-public python-mffpy
 files are directories containing several files of mostly xml files, but also
 binary files.")
     (license license:asl2.0)))
+
+(define-public python-mne
+  (package
+    (name "python-mne")
+    (version "1.0.3")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (pypi-uri "mne" version))
+       (sha256
+        (base32
+         "1vfgqpvjq2b3x1wkw7mn7hk6gcxbvgqfknbh9qkg2r7r22cy38p5"))))
+    (build-system python-build-system)
+    (arguments
+     ;; The test data is distributed in a separate repository without a
+     ;; license, https://github.com/mne-tools/mne-testing-data
+     `(#:tests? #f))
+    (propagated-inputs (list python-numpy python-scipy
+                             python-matplotlib
+                             python-tqdm
+                             python-pooch
+                             python-decorator
+                             python-h5io
+                             python-packaging
+                             python-pymatreader
+                             python-pyqt
+                             python-pyqt5-sip
+                             python-sip
+                             python-scikit-learn
+                             python-nibabel
+                             python-numba
+                             python-h5py
+                             python-jinja2
+                             python-pandas
+                             python-numexpr
+                             jupyter
+                             python-picard
+                             python-statsmodels
+                             python-joblib
+                             python-psutil
+                             python-dipy
+                             vtk
+                             python-nilearn
+                             python-xlrd
+                             python-imageio
+                             python-imageio-ffmpeg
+                             python-traitlets
+                             python-pyvista
+                             python-pyvistaqt
+                             python-mffpy
+                             python-ipywidgets
+                             ;; FIXME: add the following dependencies:
+                             ;; python-ipyvtklink requires NPM to build
+                             ;; mne-qt-browser is not included, because it
+                             ;; depends on MNE.
+                             ))
+    (home-page "https://mne.tools/dev/")
+    (synopsis "MNE-Python project for MEG and EEG data analysis")
+    (description
+     "Open-source Python package for exploring, visualizing, and
+analyzing human neurophysiological data: MEG, EEG, sEEG, ECoG, NIRS, and
+more.")
+    (license license:bsd-3)))
-- 
2.36.1