mirror of
https://git.in.rschanz.org/ryan77627/guix.git
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d6db4d16bd
* gnu/packages/jupyter.scm (python-comm): New variable. Change-Id: I1bed7b6f54e63db6f47cdbaccd816c56f06045f8 Signed-off-by: Andrew Tropin <andrew@trop.in>
910 lines
34 KiB
Scheme
910 lines
34 KiB
Scheme
;;; GNU Guix --- Functional package management for GNU
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;;; Copyright © 2019, 2022 Ludovic Courtès <ludo@gnu.org>
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;;; Copyright © 2021, 2022, 2023 Ricardo Wurmus <rekado@elephly.net>
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;;; Copyright © 2021 Hugo Lecomte <hugo.lecomte@inria.fr>
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;;; Copyright © 2022 Marius Bakke <marius@gnu.org>
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;;; Copyright © 2022 Maxim Cournoyer <maxim.cournoyer@gmail.com>
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;;; Copyright © 2024 Sharlatan Hellseher <sharlatanus@gmail.com>
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;;;
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;;; This file is part of GNU Guix.
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;;;
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;;; GNU Guix is free software; you can redistribute it and/or modify it
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;;; under the terms of the GNU General Public License as published by
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;;; the Free Software Foundation; either version 3 of the License, or (at
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;;; your option) any later version.
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;;;
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;;; GNU Guix is distributed in the hope that it will be useful, but
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;;; WITHOUT ANY WARRANTY; without even the implied warranty of
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;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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;;; GNU General Public License for more details.
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;;;
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;;; You should have received a copy of the GNU General Public License
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;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
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(define-module (gnu packages jupyter)
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#:use-module ((guix licenses) #:prefix license:)
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#:use-module (guix gexp)
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#:use-module (guix packages)
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#:use-module (guix download)
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#:use-module (guix git-download)
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#:use-module (guix build-system cmake)
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#:use-module (guix build-system pyproject)
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#:use-module (guix build-system python)
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#:use-module (gnu packages bash)
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#:use-module (gnu packages check)
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#:use-module (gnu packages cpp)
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#:use-module (gnu packages docker)
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#:use-module (gnu packages linux)
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#:use-module (gnu packages monitoring)
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#:use-module (gnu packages networking)
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#:use-module (gnu packages pkg-config)
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#:use-module (gnu packages python)
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#:use-module (gnu packages python-build)
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#:use-module (gnu packages python-check)
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#:use-module (gnu packages python-crypto)
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#:use-module (gnu packages python-science)
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#:use-module (gnu packages python-xyz)
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#:use-module (gnu packages python-web)
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#:use-module (gnu packages rdf)
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#:use-module (gnu packages time)
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#:use-module (gnu packages xml)
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#:use-module (gnu packages tls)
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#:use-module (gnu packages sphinx)
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#:use-module (gnu packages serialization)
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#:use-module (gnu packages version-control))
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(define-public python-jupyter-protocol
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(package
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(name "python-jupyter-protocol")
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(version "0.2.0")
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(source (origin
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(method url-fetch)
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(uri (pypi-uri "jupyter_protocol" version))
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(sha256
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(base32
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"075vbaak6hlk9606lw61ldv72p6694k938jd1kvkm6spd0pczpmn"))))
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(build-system python-build-system)
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(propagated-inputs
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(list python-dateutil
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python-ipython-genutils
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python-jupyter-core
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python-pyzmq
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python-traitlets))
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(native-inputs
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(list python-ipykernel python-ipython python-mock python-pytest))
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(home-page "https://jupyter.org")
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(synopsis "Jupyter protocol implementation")
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(description
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"This Python library is an experimental implementation of the
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@uref{https://jupyter-client.readthedocs.io/en/latest/messaging.html, Jupyter
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protocol} to be used by both clients and kernels.")
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(license license:bsd-3)
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(properties '((upstream-name . "jupyter_protocol")))))
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(define-public python-jupyter-kernel-mgmt
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(package
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(name "python-jupyter-kernel-mgmt")
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(version "0.5.1")
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(source (origin
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(method url-fetch)
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(uri (pypi-uri "jupyter_kernel_mgmt" version))
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(sha256
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(base32
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"0977ixfi1pzjgy84hl0zycg4wpllmid98fhzcpy0lxd322w4sl7x"))))
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(build-system python-build-system)
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(arguments
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(list
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;; There are 8 test failures, most of them in 'test_client_loop.py'
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;; (see: https://github.com/takluyver/jupyter_kernel_mgmt/issues/48).
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#:tests? #f
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#:phases
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#~(modify-phases %standard-phases
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(replace 'check
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(lambda* (#:key tests? #:allow-other-keys)
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(when tests?
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(setenv "HOME" "/tmp")
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(invoke "pytest" "-vv" "jupyter_kernel_mgmt")))))))
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(propagated-inputs
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(list python-dateutil
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python-entrypoints
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python-jupyter-core
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python-jupyter-protocol
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python-pyzmq
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python-tornado
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python-traitlets))
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(native-inputs
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(list python-async-generator
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python-ipykernel
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python-ipython
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python-pytest
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python-pytest-asyncio))
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(home-page "https://jupyter.org")
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(synopsis "Discover, launch, and communicate with Jupyter kernels")
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(description
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"This package is an experimental refactoring of the machinery for
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launching and using Jupyter kernels.")
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(license license:bsd-3)
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(properties '((upstream-name . "jupyter_kernel_mgmt")))))
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(define-public python-jupyter-kernel-test
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(package
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(name "python-jupyter-kernel-test")
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(version "0.3")
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(home-page "https://github.com/jupyter/jupyter_kernel_test")
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(source (origin
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;; PyPI has a ".whl" file but not a proper source release.
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;; Thus, fetch code from Git.
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(method git-fetch)
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(uri (git-reference (url home-page) (commit version)))
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(file-name (git-file-name name version))
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(sha256
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(base32
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"00iy74i4i8is6axb9vlsm0b9wxkvyyxnbl8r0i4gaj3xd788jm83"))))
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(build-system python-build-system)
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(arguments
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;; The repo doesn't contain a "setup.py" file so install files manually.
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'(#:phases (modify-phases %standard-phases
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(delete 'build)
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(delete 'check)
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(replace 'install
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(lambda* (#:key inputs outputs #:allow-other-keys)
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(let* ((out (assoc-ref outputs "out"))
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(version (python-version (assoc-ref inputs "python")))
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(pydir (string-append out "/lib/python"
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version "/site-packages/"
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"jupyter_kernel_test")))
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(for-each (lambda (file)
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(install-file file pydir))
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(find-files "jupyter_kernel_test"
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"\\.py$"))
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#t))))))
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(propagated-inputs
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(list python-jupyter-kernel-mgmt python-jupyter-protocol
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python-jsonschema))
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(synopsis "Test Jupyter kernels")
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(description
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"@code{jupyter_kernel_test} is a tool for testing Jupyter kernels. It
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tests kernels for successful code execution and conformance with the
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@uref{https://jupyter-client.readthedocs.io/en/latest/messaging.html, Jupyter
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Messaging Protocol}.")
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(license license:bsd-3)))
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(define-public xeus
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(package
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(name "xeus")
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(version "2.4.1")
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(source (origin
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(method git-fetch)
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(uri (git-reference
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(url "https://github.com/jupyter-xeus/xeus")
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(commit version)))
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(sha256
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(base32
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"1k1h416qkw3yra6ayfa61nv0v4ify2wvp5x27slgbcw6c88w7fb1"))
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(file-name (git-file-name name version))))
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(build-system cmake-build-system)
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(arguments
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'(#:configure-flags '("-DBUILD_STATIC_LIBS=OFF"
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"-DDISABLE_ARCH_NATIVE=ON" ;no '-march=native'
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"-DBUILD_TESTING=ON")))
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(native-inputs
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(list pkg-config
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;; The following inputs are used by the test suite.
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googletest
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python-pytest
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python-wrapper
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python-jupyter-kernel-test
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python-jupyter-client))
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(inputs
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(list xtl
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nlohmann-json
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cppzmq
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zeromq
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openssl
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`(,util-linux "lib"))) ;libuuid
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(home-page "https://quantstack.net/xeus")
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(synopsis "C++ implementation of the Jupyter Kernel protocol")
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(description
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"@code{xeus} is a library meant to facilitate the implementation of
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kernels for Jupyter. It takes the burden of implementing the Jupyter Kernel
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protocol so developers can focus on implementing the interpreter part of the
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kernel.
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Several Jupyter kernels are built upon @code{xeus}, such as @code{xeus-cling},
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a kernel for the C++ programming language, and @code{xeus-python}, an
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alternative Python kernel for Jupyter.")
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(license license:bsd-3)))
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(define-public python-jupyterlab-pygments
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(package
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(name "python-jupyterlab-pygments")
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(version "0.1.2")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "jupyterlab_pygments" version))
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(sha256
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(base32
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"0ij14mmnc39nmf84i0av6j9glazjic7wzv1qyhr0j5966s3s1kfg"))))
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(build-system python-build-system)
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(arguments '(#:tests? #false)) ; there are no tests
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(propagated-inputs
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(list python-pygments))
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(home-page "https://jupyter.org")
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(synopsis "Pygments theme using JupyterLab CSS variables")
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(description
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"This package contains a syntax coloring theme for pygments making use of
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the JupyterLab CSS variables.")
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(license license:bsd-3)))
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(define-public python-jupyterlab-server
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(package
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(name "python-jupyterlab-server")
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(version "2.12.0")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "jupyterlab_server" version))
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(sha256
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(base32 "1gxbfa5s0v4z0v8kagkm2bz8hlli5pwhr89y68w5kxcrqfsg9q00"))))
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(build-system python-build-system)
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(arguments
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(list
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#:phases
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#~(modify-phases %standard-phases
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(replace 'check
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(lambda* (#:key tests? #:allow-other-keys)
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(when tests?
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(invoke "pytest" "-vv" "-c" "/dev/null" "tests"
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;; XXX: These tests appear to fail due to the lack of
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;; locales.
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"-k" "not locale and not language")))))))
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(propagated-inputs
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(list python-babel
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python-entrypoints
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python-importlib-metadata ;TODO: remove after Python >= 3.10
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python-jinja2
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python-json5
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python-jsonschema
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python-jupyter-server
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python-packaging
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python-requests))
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(native-inputs
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(list python-ipykernel
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python-jupyter-server
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python-openapi-core
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python-openapi-spec-validator
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python-pytest
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python-pytest-console-scripts
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python-pytest-tornasync
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python-ruamel.yaml
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python-strict-rfc3339))
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(home-page "https://jupyter.org")
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(synopsis "Server components for JupyterLab applications")
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(description "JupyterLab Server sits between JupyterLab and Jupyter
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Server, and provides a set of REST API handlers and utilities that are used by
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JupyterLab. It is a separate project in order to accommodate creating
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JupyterLab-like applications from a more limited scope.")
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(license license:bsd-3)))
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(define-public python-jupyter-packaging
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(package
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(name "python-jupyter-packaging")
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(version "0.12.0")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "jupyter_packaging" version))
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(sha256
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(base32
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"1b7ssc627vgrdl21c09w9sxk5fc1ps3g7f70laxag4yw1bb5ax5j"))))
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(build-system python-build-system)
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(arguments
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(list
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#:phases
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#~(modify-phases %standard-phases
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(replace 'check
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(lambda* (#:key tests? #:allow-other-keys)
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(when tests?
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;; Disable isolation so that the package environment can be
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;; setup without connectivity.
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(setenv "SOURCE_DATE_EPOCH" "315532800")
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(substitute* "tests/test_build_api.py"
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(("\"-m\", \"build\"" all)
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(string-append all ", \"--no-isolation\"")))
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(invoke "python" "-m" "pytest" "-vv")))))))
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(propagated-inputs
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(list python-deprecation python-packaging python-setuptools
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python-tomlkit python-wheel))
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(native-inputs
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(list python-pypa-build python-coverage python-pytest
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python-pytest-cov python-pytest-mock))
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(home-page "https://jupyter.org")
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(synopsis "Jupyter packaging utilities")
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(description "This package provides tools to help build and install
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Jupyter Python packages that require a pre-build step that may include
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JavaScript build steps.")
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(license license:bsd-3)))
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(define-public python-jupyter-server
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(package
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(name "python-jupyter-server")
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(version "1.16.0")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "jupyter_server" version))
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(sha256
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(base32
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"0fj6l34m6vk3yic87isz9bzgg4qsbr285x1faamf512bsrxghmn7"))))
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(build-system python-build-system)
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(arguments
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`(#:phases
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(modify-phases %standard-phases
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(replace 'check
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(lambda* (#:key inputs outputs tests? #:allow-other-keys)
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(when tests?
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(add-installed-pythonpath inputs outputs)
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(let ((home (string-append (getcwd) "/guix-home")))
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(setenv "HOME" home))
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;; Add jupyter-server executable to PATH.
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(setenv "PATH"
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(string-append (assoc-ref outputs "out") "/bin:"
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(getenv "PATH")))
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(with-directory-excursion "jupyter_server"
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;; The pytest fixtures are only loaded when the file is
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;; called conftest.py.
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(rename-file "pytest_plugin.py" "conftest.py")
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(invoke "pytest" "-vv"
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;; Fails with internal server error
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"-k" "not test_list_formats"
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;; Integration tests require a server.
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"-m" "not integration_test"))))))))
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(propagated-inputs
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(list python-anyio
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python-argon2-cffi
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python-jinja2
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python-jupyter-client
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python-jupyter-core
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python-nbconvert
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python-nbformat
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python-prometheus-client
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python-pyzmq
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python-send2trash
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python-terminado
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python-tornado-6
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python-traitlets
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python-websocket-client))
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(native-inputs
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(list python-coverage
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python-ipykernel
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python-pytest
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python-pytest-console-scripts
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python-pytest-cov
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python-pytest-mock
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python-pytest-tornasync
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python-requests))
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(home-page "https://jupyter.org")
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(synopsis "Core services, APIs, and REST endpoints for Jupyter web applications")
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(description
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"This package provides the backend—i.e. core services, APIs, and REST
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endpoints—to Jupyter web applications.")
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(license license:expat)))
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(define-public python-jupyterlab-widgets
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(package
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(name "python-jupyterlab-widgets")
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(version "1.1.4")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "jupyterlab_widgets" version))
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(sha256
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(base32
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"0kdib439i9pbv90cscq5c7w4nvv8214k9ik4dnbd152yf897cvpa"))))
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(build-system pyproject-build-system)
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(native-inputs
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(list python-jupyter-packaging python-setuptools))
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(home-page "https://github.com/jupyter-widgets/ipywidgets")
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(synopsis "Interactive widgets for Jupyter Notebooks")
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(description "ipywidgets, also known as jupyter-widgets or simply widgets,
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are interactive HTML widgets for Jupyter notebooks and the IPython kernel.")
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(license license:bsd-3)))
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(define-public python-jupyterlite-core
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(package
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(name "python-jupyterlite-core")
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(version "0.1.3")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "jupyterlite_core" version))
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(sha256
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(base32 "18ysrqlsh7a31sknfnng419r7wpx9nfj59lxxd6zl1kcj6wazh34"))))
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(build-system pyproject-build-system)
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(propagated-inputs (list python-doit python-importlib-metadata
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python-jupyter-core))
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(native-inputs (list python-ansi2html
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python-hatchling
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python-pytest-console-scripts
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python-pytest-cov
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python-pytest-xdist
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python-tornado-6))
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(home-page "https://github.com/jupyterlite/jupyterlite")
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(synopsis "Core functionality for building JupyterLite websites")
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(description "The jupyterlite-core package provides the core functionality
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for building JupyterLite websites, the jupyter-lite CLI, and extension points
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for authoring custom addons.")
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(license license:bsd-3)))
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(define-public python-jupyterlite-sphinx
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(package
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(name "python-jupyterlite-sphinx")
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(version "0.9.3")
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(source
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(origin
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(method url-fetch)
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(uri (pypi-uri "jupyterlite_sphinx" version))
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(sha256
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(base32 "05h7zrvsx0xzxlddsqfz1fxdgld66yhn6nxfp4jz20wbx6csrr4v"))))
|
|
(build-system pyproject-build-system)
|
|
(arguments (list #:tests? #false)) ;there are none
|
|
(propagated-inputs (list python-docutils python-jupyter-server
|
|
python-jupyterlab-server python-jupyterlite-core
|
|
python-sphinx))
|
|
(native-inputs (list python-hatchling))
|
|
(home-page "https://github.com/jupyterlite/jupyterlite")
|
|
(synopsis "Sphinx extension for deploying JupyterLite")
|
|
(description "This package provides a Sphinx extension for deploying
|
|
@code{JupyterLite}.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public python-jupyter-server-mathjax
|
|
(package
|
|
(name "python-jupyter-server-mathjax")
|
|
(version "0.2.5")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (pypi-uri "jupyter_server_mathjax" version))
|
|
(sha256
|
|
(base32 "1cz7grhj9jih9mgw4xk7a4bqy1fwlb1jsawh6ykxnvpydn76rnb4"))))
|
|
(build-system python-build-system)
|
|
(arguments
|
|
(list
|
|
#:phases
|
|
#~(modify-phases %standard-phases
|
|
(replace 'check
|
|
(lambda* (#:key tests? #:allow-other-keys)
|
|
(when tests?
|
|
(with-directory-excursion "/tmp"
|
|
(invoke "pytest" "-vv"
|
|
"--pyargs" "jupyter_server_mathjax"))))))))
|
|
(propagated-inputs (list python-jupyter-server))
|
|
(native-inputs
|
|
(list python-jupyter-server
|
|
python-jupyter-packaging
|
|
python-pytest
|
|
python-pytest-tornasync))
|
|
(home-page "https://jupyter.org")
|
|
(synopsis "Jupyter Server extension for serving Mathjax")
|
|
(description "This package provides a Jupyter Server extension for serving
|
|
Mathjax, the JavaScript display engine for mathematics.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public python-comm
|
|
(package
|
|
(name "python-comm")
|
|
(version "0.2.2")
|
|
(source
|
|
(origin
|
|
(method git-fetch) ; no tests data in PyPi package
|
|
(uri (git-reference
|
|
(url "https://github.com/ipython/comm")
|
|
(commit (string-append "v" version))))
|
|
(file-name (git-file-name name version))
|
|
(sha256
|
|
(base32 "18xsbpd8dgcfbc51xl59nlwaq7jnyzvgzjfj6psscv71894x4lg7"))))
|
|
(build-system pyproject-build-system)
|
|
(native-inputs
|
|
(list python-hatchling python-pytest python-setuptools-scm))
|
|
(propagated-inputs
|
|
(list python-traitlets))
|
|
(home-page "https://github.com/ipython/comm")
|
|
(synopsis "Python Comm implementation for the Jupyter kernel protocol")
|
|
(description
|
|
"This package provides a way to register a Kernel Comm implementation, as
|
|
per the Jupyter kernel protocol. It also provides a base Comm implementation
|
|
and a default CommManager that can be used.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public python-nbclient
|
|
(package
|
|
(name "python-nbclient")
|
|
(version "0.6.6")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (pypi-uri "nbclient" version))
|
|
(sha256
|
|
(base32
|
|
"09whkb8ll1nfdn4h3k0shncgkfak4lglmiwn8wdni6nrc5wnmxqd"))))
|
|
(build-system pyproject-build-system)
|
|
;; Tests require tools from nbconvert, which would introduces a cycle.
|
|
(arguments '(#:tests? #false))
|
|
(propagated-inputs
|
|
(list python-jupyter-client python-jupyter-core python-nbformat
|
|
python-traitlets))
|
|
(home-page "https://jupyter.org")
|
|
(synopsis "Client library for executing notebooks")
|
|
(description
|
|
"This package provides a client library for executing notebooks.
|
|
It was formerly known as nbconvert's @code{ExecutePreprocessor.}")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public python-nbdime
|
|
(package
|
|
(name "python-nbdime")
|
|
(version "3.1.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (pypi-uri "nbdime" version))
|
|
(sha256
|
|
(base32 "12v41lricbg713lzlfcx0cilfm9spndaanhp39q4ydvix4h76xk7"))))
|
|
(build-system python-build-system)
|
|
(arguments
|
|
(list
|
|
#:phases
|
|
#~(modify-phases %standard-phases
|
|
(add-after 'unpack 'remove-ipython-genutils
|
|
;; TODO: Remove when a release newer than 3.1.1 is made.
|
|
(lambda _
|
|
(substitute* "nbdime/config.py"
|
|
(("from ipython_genutils import py3compat")
|
|
"")
|
|
(("py3compat\\.getcwd")
|
|
"os.getcwd")))))))
|
|
(propagated-inputs
|
|
(list python-colorama
|
|
python-gitpython
|
|
python-jinja2
|
|
python-jupyter-server
|
|
python-jupyter-server-mathjax
|
|
python-nbformat
|
|
python-pygments
|
|
python-requests
|
|
python-tornado-6))
|
|
(native-inputs
|
|
(list python-jupyter-server
|
|
python-mock
|
|
python-notebook
|
|
python-pytest
|
|
python-pytest-tornado
|
|
python-tabulate))
|
|
(home-page "https://nbdime.readthedocs.io")
|
|
(synopsis "Diff tools for Jupyter Notebooks")
|
|
(description "@code{nbdime} provides tools for diffing and merging of
|
|
Jupyter Notebooks. It includes the following commands:
|
|
@table @command
|
|
@item nbdiff compare notebooks in a terminal-friendly way
|
|
@item nbmerge three-way merge of notebooks with automatic conflict resolution
|
|
@item nbdiff-web rich rendered diff of notebooks
|
|
@item nbmerge-web web-based three-way merge tool for notebooks
|
|
nbshow present a single notebook in a terminal-friendly way
|
|
@end table")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public python-nbstripout
|
|
(package
|
|
(name "python-nbstripout")
|
|
(version "0.5.0")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (pypi-uri "nbstripout" version))
|
|
(sha256
|
|
(base32
|
|
"1n57nvxsc94gz9w8ymi83bjkfhfwkpmx4y14m6gjrmlqd49m1aw6"))))
|
|
(build-system python-build-system)
|
|
(arguments
|
|
'(#:phases
|
|
(modify-phases %standard-phases
|
|
(add-after 'unpack 'delete-bad-tests
|
|
(lambda _
|
|
;; These tests use git and hg, and they are sensitive to the
|
|
;; exact printed output.
|
|
(for-each delete-file (list "tests/test-git.t"
|
|
"tests/test-hg.t"
|
|
"tests/test-status.t"
|
|
"tests/test-uninstall.t"))))
|
|
(add-before 'check 'set-CRAMSHELL
|
|
(lambda _
|
|
(setenv "CRAMSHELL" (which "bash")))))))
|
|
(propagated-inputs (list python-nbformat))
|
|
(native-inputs
|
|
(list python-pytest
|
|
python-pytest-cram
|
|
python-pytest-flake8
|
|
python-pytest-runner))
|
|
(home-page "https://github.com/kynan/nbstripout")
|
|
(synopsis "Strips outputs from Jupyter and IPython notebooks")
|
|
(description
|
|
"This package opens a notebook, strips its output, and writes the outputless
|
|
version to the original file.")
|
|
(license license:expat)))
|
|
|
|
(define-public repo2docker
|
|
(package
|
|
(name "repo2docker")
|
|
(version "2021.08.0")
|
|
(source (origin
|
|
(method git-fetch)
|
|
(uri (git-reference
|
|
(url "https://github.com/jupyterhub/repo2docker/")
|
|
(commit version)))
|
|
(file-name (git-file-name name version))
|
|
(sha256
|
|
(base32
|
|
"111irpghzys0s5ixs8paskz7465cls1sm9d5bg45a15jklcw84a9"))))
|
|
(outputs '("out" "doc"))
|
|
(build-system python-build-system)
|
|
(arguments
|
|
`(#:phases (modify-phases %standard-phases
|
|
(add-after 'patch-shebangs 'fix-install-miniforge
|
|
(lambda* (#:key outputs #:allow-other-keys)
|
|
(let* ((out (assoc-ref outputs "out")))
|
|
(substitute* (find-files
|
|
out "^(install-miniforge|install-nix|\
|
|
nix-shell-wrapper|repo2docker-entrypoint)")
|
|
(("^#!(.*)/bin/bash")
|
|
"#!/bin/bash"))
|
|
(substitute* (find-files out "^freeze\\.py$")
|
|
(("^#!(.*)/bin/python3")
|
|
"#!/bin/python3\n")))))
|
|
(add-after 'install 'make-doc
|
|
(lambda* (#:key outputs #:allow-other-keys)
|
|
(let* ((out (assoc-ref outputs "doc"))
|
|
(doc (string-append out "/share/doc/"
|
|
,(package-name this-package))))
|
|
(setenv "PYTHONPATH"
|
|
(string-append (getcwd) ":"
|
|
(getenv "GUIX_PYTHONPATH")))
|
|
;; Don't treat warnings as errors.
|
|
(substitute* "docs/Makefile"
|
|
(("(SPHINXOPTS[[:blank:]]+= )-W" _ group)
|
|
group))
|
|
(with-directory-excursion "docs"
|
|
(invoke "make" "html")
|
|
(copy-recursively "build/html"
|
|
(string-append doc "/html")))))))))
|
|
(inputs
|
|
(list python-traitlets
|
|
python-toml
|
|
python-semver
|
|
python-ruamel.yaml
|
|
python-requests
|
|
python-json-logger
|
|
python-jinja2
|
|
python-iso8601
|
|
python-escapism
|
|
python-docker
|
|
python-chardet))
|
|
(native-inputs
|
|
(list python-sphinx python-entrypoints python-recommonmark
|
|
python-sphinxcontrib-autoprogram python-pydata-sphinx-theme))
|
|
(home-page "https://repo2docker.readthedocs.io/en/latest/index.html#")
|
|
(synopsis "Generate docker images from repositories")
|
|
(description
|
|
"repo2docker fetches a repository (from GitHub, GitLab, Zenodo, Figshare,
|
|
Dataverse installations, a Git repository or a local directory) and builds a
|
|
container image in which the code can be executed. The image build process is
|
|
based on the configuration files found in the repository. repo2docker can be
|
|
used to explore a repository locally by building and executing the constructed
|
|
image of the repository, or as a means of building images that are pushed to a
|
|
Docker registry.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public python-bash-kernel
|
|
(package
|
|
(name "python-bash-kernel")
|
|
(version "0.7.2")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (pypi-uri "bash_kernel" version))
|
|
(sha256
|
|
(base32
|
|
"0w0nbr3iqqsgpk83rgd0f5b02462bkyj2n0h6i9dwyc1vpnq9350"))))
|
|
(build-system python-build-system)
|
|
(arguments
|
|
`(#:tests? #f
|
|
#:phases
|
|
(modify-phases %standard-phases
|
|
(add-after 'unpack 'bash-references
|
|
(lambda* (#:key inputs #:allow-other-keys)
|
|
(substitute* "bash_kernel/kernel.py"
|
|
(("\"bash\"")
|
|
(string-append "\"" (assoc-ref inputs "bash") "/bin/bash\""))
|
|
(("\\['bash', ")
|
|
(string-append "['" (assoc-ref inputs "bash") "/bin/bash', ")))
|
|
#t))
|
|
(add-after 'install 'install-kernelspec
|
|
(lambda* (#:key outputs #:allow-other-keys)
|
|
(let ((out (assoc-ref outputs "out")))
|
|
(setenv "HOME" "/tmp")
|
|
(invoke "python" "-m" "bash_kernel.install" "--prefix" out)
|
|
#t))))))
|
|
(inputs
|
|
(list bash
|
|
python-pexpect
|
|
python-ipykernel
|
|
python-jupyter-client))
|
|
(home-page "https://github.com/takluyver/bash_kernel")
|
|
(synopsis "Jupyter kernel for Bash")
|
|
(description "A bash shell kernel for Jupyter.")
|
|
(license license:expat)))
|
|
|
|
(define-public python-sparqlkernel
|
|
(package
|
|
(name "python-sparqlkernel")
|
|
(version "1.3.0")
|
|
(source (origin
|
|
(method url-fetch)
|
|
(uri (pypi-uri "sparqlkernel" version))
|
|
(sha256
|
|
(base32
|
|
"004v22nyi5cnpxq4fiws89p7i5wcnzv45n3n70axdd6prh6rkapx"))))
|
|
(build-system python-build-system)
|
|
(arguments
|
|
(list
|
|
#:tests? #f ;no test suite
|
|
#:phases
|
|
#~(modify-phases %standard-phases
|
|
(add-after 'unpack 'no-custom-css
|
|
(lambda _
|
|
(substitute* "sparqlkernel/install.py"
|
|
(("install_custom_css\\( destd, PKGNAME \\)") ""))))
|
|
(add-after 'add-install-to-pythonpath 'install-kernelspec
|
|
(lambda _
|
|
(setenv "HOME" "/tmp")
|
|
(invoke
|
|
(string-append #$output "/bin/jupyter-sparqlkernel")
|
|
"install"
|
|
(string-append "--InstallKernelSpec.prefix=" #$output)))))))
|
|
(propagated-inputs
|
|
(list python-ipykernel
|
|
python-notebook
|
|
python-pygments
|
|
python-rdflib
|
|
python-sparqlwrapper
|
|
python-traitlets))
|
|
(home-page "https://github.com/paulovn/sparql-kernel")
|
|
(synopsis "Jupyter kernel for SPARQL")
|
|
(description "This module installs a Jupyter kernel for SPARQL. It allows
|
|
sending queries to an SPARQL endpoint, fetching and presenting the results in
|
|
a notebook.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public python-ipympl
|
|
(package
|
|
(name "python-ipympl")
|
|
(version "0.9.1")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (pypi-uri "ipympl" version))
|
|
(sha256
|
|
(base32 "11rppjdqzgs4pfiq8gww5xkpbk21fp86vvv839v56b9rqq06j2b4"))))
|
|
(build-system python-build-system)
|
|
(propagated-inputs
|
|
(list python-ipython
|
|
python-ipython-genutils
|
|
python-ipywidgets
|
|
python-matplotlib
|
|
python-numpy
|
|
python-pillow
|
|
python-traitlets))
|
|
(native-inputs
|
|
(list python-jupyter-packaging))
|
|
(home-page "https://matplotlib.org/ipympl/")
|
|
(synopsis "Matplotlib Jupyter Extension")
|
|
(description "Leveraging the Jupyter interactive widgets framework, ipympl
|
|
enables the interactive features of matplotlib in the Jupyter notebook and in
|
|
JupyterLab.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public python-ipydatawidgets
|
|
(package
|
|
(name "python-ipydatawidgets")
|
|
(version "4.2.0")
|
|
(source
|
|
(origin
|
|
(method url-fetch)
|
|
(uri (pypi-uri "ipydatawidgets" version))
|
|
(sha256
|
|
(base32 "1g65nzlsb1cipmvh9v27b22kkmzwvg8zbf32hmg1c25mb65vbr6h"))))
|
|
(build-system python-build-system)
|
|
(arguments
|
|
'(#:phases
|
|
(modify-phases %standard-phases
|
|
(replace 'check
|
|
(lambda* (#:key tests? #:allow-other-keys)
|
|
(when tests?
|
|
(invoke
|
|
"pytest" "-v"
|
|
;; Disable failing tests.
|
|
"-k" (string-append
|
|
"not test_dataunion_constricts_widget_data"
|
|
" and not test_dataunion_widget_change_notified"
|
|
" and not test_datawidget_creation_blank_comm"))))))))
|
|
(propagated-inputs
|
|
(list python-ipywidgets python-numpy python-six python-traittypes))
|
|
(native-inputs
|
|
(list python-jupyter-packaging
|
|
python-nbval
|
|
python-pytest
|
|
python-pytest-cov))
|
|
(home-page "https://github.com/vidartf/ipydatawidgets")
|
|
(synopsis "Widgets to help facilitate reuse of large datasets across widgets")
|
|
(description
|
|
"This package provides a set of widgets to help facilitate reuse of large
|
|
datasets across widgets.")
|
|
(license license:bsd-3)))
|
|
|
|
(define-public python-voila
|
|
(package
|
|
(name "python-voila")
|
|
(version "0.3.5")
|
|
(source
|
|
(origin
|
|
(method git-fetch) ;no tests in pypi archive
|
|
(uri (git-reference
|
|
(url "https://github.com/voila-dashboards/voila")
|
|
(commit (string-append "v" version))))
|
|
(file-name (git-file-name name version))
|
|
(sha256
|
|
(base32
|
|
"10qn34ddmcwcl9zxa0gwxarxr64k8hx4yysdwrf0iqvmzmkwmbbj"))))
|
|
(build-system python-build-system)
|
|
(arguments
|
|
(list
|
|
#:phases
|
|
#~(modify-phases %standard-phases
|
|
(add-after 'unpack 'relax-requirements
|
|
(lambda _
|
|
(substitute* "setup.cfg"
|
|
(("nbclient>=0.4.0,<0.6")
|
|
"nbclient"))))
|
|
(replace 'check
|
|
(lambda* (#:key tests? #:allow-other-keys)
|
|
(when tests?
|
|
(setenv "HOME" "/tmp")
|
|
(invoke "pytest" "-vv"
|
|
;; Many tests depend on Node JavaScript dependencies
|
|
;; and a running HTTP server; ignore them.
|
|
"--ignore" "tests/app"
|
|
"--ignore" "tests/server")))))))
|
|
(propagated-inputs
|
|
(list python-jupyter-client
|
|
python-jupyter-server
|
|
python-jupyterlab-server
|
|
python-nbclient
|
|
python-nbconvert
|
|
python-traitlets
|
|
python-websockets))
|
|
(native-inputs
|
|
(list python-ipywidgets
|
|
python-matplotlib
|
|
python-mock
|
|
python-numpy
|
|
python-pandas
|
|
python-pytest
|
|
python-pytest-tornasync
|
|
python-tornado-6))
|
|
(home-page "https://github.com/voila-dashboards/voila")
|
|
(synopsis "Render live Jupyter notebooks with interactive widgets")
|
|
(description
|
|
"Voilà turns Jupyter notebooks into standalone web applications. Unlike
|
|
the usual HTML-converted notebooks, each user connecting to the Voilà tornado
|
|
application gets a dedicated Jupyter kernel which can execute the callbacks to
|
|
changes in Jupyter interactive widgets.")
|
|
(license license:bsd-3)))
|