;;; Copyright © 2017, 2018, 2019 Mathieu Othacehe <m.othacehe@gmail.com>
;;; Copyright © 2017 José Miguel Sánchez García <jmi2k@openmailbox.org>
;;; Copyright © 2017 Roel Janssen <roel@gnu.org>
-;;; Copyright © 2017, 2018 Kei Kebreau <kkebreau@posteo.net>
+;;; Copyright © 2017, 2018, 2019 Kei Kebreau <kkebreau@posteo.net>
;;; Copyright © 2017 Rutger Helling <rhelling@mykolab.com>
;;; Copyright © 2017 Muriithi Frederick Muriuki <fredmanglis@gmail.com>
;;; Copyright © 2017, 2019 Brendan Tildesley <mail@brendan.scot>
#:use-module (gnu packages ghostscript)
#:use-module (gnu packages gl)
#:use-module (gnu packages glib)
+ #:use-module (gnu packages gnome)
#:use-module (gnu packages graphviz)
#:use-module (gnu packages graphics)
#:use-module (gnu packages gstreamer)
#:use-module (gnu packages python-check)
#:use-module (gnu packages python-compression)
#:use-module (gnu packages python-crypto)
+ #:use-module (gnu packages python-science)
#:use-module (gnu packages python-web)
#:use-module (gnu packages qt)
#:use-module (gnu packages readline)
(define-public python2-schedule
(package-with-python2 python-schedule))
-(define-public python-pandas
- (package
- (name "python-pandas")
- (version "0.25.2")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "pandas" version))
- (sha256
- (base32 "1gp2pvzdiakvgjmykdzdlzrsfbg4vjm49jjdl9s0ha0a3yfs34fa"))))
- (build-system python-build-system)
- (arguments
- `(#:modules ((guix build utils)
- (guix build python-build-system)
- (ice-9 ftw)
- (srfi srfi-26))
- #:phases (modify-phases %standard-phases
- (add-after 'unpack 'patch-which
- (lambda* (#:key inputs #:allow-other-keys)
- (let ((which (assoc-ref inputs "which")))
- (substitute* "pandas/io/clipboard/__init__.py"
- (("^CHECK_CMD = .*")
- (string-append "CHECK_CMD = \"" which "\"\n"))))
- #t))
- (replace 'check
- (lambda _
- (let ((build-directory
- (string-append
- (getcwd) "/build/"
- (car (scandir "build"
- (cut string-prefix? "lib." <>))))))
- ;; Disable the "strict data files" option which causes
- ;; the build to error out if required data files are
- ;; not available (as is the case with PyPI archives).
- (substitute* "setup.cfg"
- (("addopts = --strict-data-files") "addopts = "))
- (with-directory-excursion build-directory
- ;; Delete tests that require "moto" which is not yet
- ;; in Guix.
- (for-each delete-file
- '("pandas/tests/io/conftest.py"
- "pandas/tests/io/json/test_compression.py"
- "pandas/tests/io/parser/test_network.py"
- "pandas/tests/io/test_parquet.py"))
- (invoke "pytest" "-vv" "pandas" "--skip-slow"
- "--skip-network" "-k"
- ;; XXX: Due to the deleted tests above.
- "not test_read_s3_jsonl"))))))))
- (propagated-inputs
- `(("python-numpy" ,python-numpy)
- ("python-openpyxl" ,python-openpyxl)
- ("python-pytz" ,python-pytz)
- ("python-dateutil" ,python-dateutil)
- ("python-xlrd" ,python-xlrd)))
- (inputs
- `(("which" ,which)))
- (native-inputs
- `(("python-cython" ,python-cython)
- ("python-beautifulsoup4" ,python-beautifulsoup4)
- ("python-lxml" ,python-lxml)
- ("python-html5lib" ,python-html5lib)
- ("python-nose" ,python-nose)
- ("python-pytest" ,python-pytest)
- ("python-pytest-mock" ,python-pytest-mock)))
- (home-page "https://pandas.pydata.org")
- (synopsis "Data structures for data analysis, time series, and statistics")
- (description
- "Pandas is a Python package providing fast, flexible, and expressive data
-structures designed to make working with structured (tabular,
-multidimensional, potentially heterogeneous) and time series data both easy
-and intuitive. It aims to be the fundamental high-level building block for
-doing practical, real world data analysis in Python.")
- (properties `((python2-variant . ,(delay python2-pandas))))
- (license license:bsd-3)))
-
-;; Pandas 0.24.x are the last versions that support Python 2.
-(define-public python2-pandas
- (let ((pandas (package-with-python2
- (strip-python2-variant python-pandas))))
- (package/inherit
- pandas
- (version "0.24.2")
- (source (origin
- (method url-fetch)
- (uri (pypi-uri "pandas" version))
- (sha256
- (base32
- "18imlm8xbhcbwy4wa957a1fkamrcb0z988z006jpfda3ki09z4ag")))))))
-
(define-public python2-mechanize
(package
(name "python2-mechanize")
(define-public python-jsonrpc-server
(package
(name "python-jsonrpc-server")
- (version "0.1.2")
+ (version "0.3.2")
(source
(origin
(method url-fetch)
(uri (pypi-uri "python-jsonrpc-server" version))
(sha256
(base32
- "0m4ykpcdy52x37n1ikysp07j7p8ialcdvvvsrjp3545sn7iiid09"))))
+ "0ddgdp26dfxaz6isjbb12974b3rxavgsqrn2zrmck62cmipg5g05"))))
(build-system python-build-system)
(propagated-inputs
`(("python-future" ,python-future)
("python-mock" ,python-mock)
- ("python-pytest" ,python-pytest)))
+ ("python-pytest" ,python-pytest)
+ ("python-ujson" ,python-ujson)))
(home-page
"https://github.com/palantir/python-jsonrpc-server")
(synopsis "JSON RPC 2.0 server library")
(define-public python-language-server
(package
(name "python-language-server")
- (version "0.29.1")
+ (version "0.31.2")
(source
(origin
(method url-fetch)
(uri (pypi-uri "python-language-server" version))
(sha256
(base32
- "1f8qlflh6j3s7qfmzhirpl8fgidl6f0qbakdmiml96wdxzvka0s3"))))
+ "1iq69wc1fyhirfyq25ih41wq9yvr7bchiw0i116adpdgcq6m9idq"))))
(build-system python-build-system)
(propagated-inputs
`(("python-pluggy" ,python-pluggy)
provides additional functionality on the produced Mallard documents.")
(license license:expat)))
-(define-public python-scikit-image
- (package
- (name "python-scikit-image")
- (version "0.14.2")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "scikit-image" version))
- (sha256
- (base32 "07qchljkyxvg5nrm12fvszi7pmjk4m01qp0w0z8syxzxxs20pz8s"))))
- (build-system python-build-system)
- (arguments
- ;; TODO: Some tests require running X11 server. Disable them?
- '(#:tests? #f))
- ;; See DEPENDS.txt for the list of build and run time requiremnts
- (propagated-inputs
- `(("python-cloudpickle" ,python-cloudpickle)
- ("python-dask" ,python-dask)
- ("python-matplotlib" ,python-matplotlib)
- ("python-networkx" ,python-networkx)
- ("python-numpy" ,python-numpy)
- ("python-pillow" ,python-pillow)
- ("python-pywavelets" ,python-pywavelets)
- ("python-scipy" ,python-scipy)
- ("python-six" ,python-six)))
- (native-inputs
- `(("python-cython" ,python-cython)))
- (home-page "http://scikit-image.org/")
- (synopsis "Image processing in Python")
- (description
- "Scikit-image is a collection of algorithms for image processing.")
- (license license:bsd-3)))
-
-(define-public python2-scikit-image
- (package-with-python2 python-scikit-image))
-
(define-public python-cython
(package
(name "python-cython")
operators such as union, intersection, and difference.")
(license license:asl2.0)))
-(define-public python-scipy
- (package
- (name "python-scipy")
- (version "1.3.2")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "scipy" version))
- (sha256
- (base32 "192d8dsybvhv19igkrsafbdafx198nz7pibkjgrqjhlr66s3jfd0"))))
- (build-system python-build-system)
- (propagated-inputs
- `(("python-numpy" ,python-numpy)
- ("python-matplotlib" ,python-matplotlib)
- ("python-pyparsing" ,python-pyparsing)))
- (inputs
- `(("lapack" ,lapack)
- ("openblas" ,openblas)))
- (native-inputs
- `(("python-cython" ,python-cython)
- ("python-pytest" ,python-pytest)
- ("python-sphinx" ,python-sphinx)
- ("python-numpydoc" ,python-numpydoc)
- ("gfortran" ,gfortran)
- ("perl" ,perl)
- ("which" ,which)))
- (outputs '("out" "doc"))
- (arguments
- `(#:phases
- (modify-phases %standard-phases
- (add-after 'unpack 'disable-broken-tests
- (lambda _
- (substitute* "scipy/sparse/linalg/dsolve/tests/test_linsolve.py"
- (("^( +)def test_threads_parallel\\(self\\):" m indent)
- (string-append indent
- "@pytest.mark.skip(reason=\"Disabled by Guix\")\n"
- m)))
- (substitute* "scipy/sparse/linalg/eigen/arpack/tests/test_arpack.py"
- (("^def test_parallel_threads\\(\\):" m)
- (string-append "@pytest.mark.skip(reason=\"Disabled by Guix\")\n"
- m)))
- #t))
- (add-before 'build 'configure-openblas
- (lambda* (#:key inputs #:allow-other-keys)
- (call-with-output-file "site.cfg"
- (lambda (port)
- (format port
- "[blas]
-libraries = openblas
-library_dirs = ~a/lib
-include_dirs = ~a/include
-
-# backslash-n to make emacs happy
-\n[atlas]
-library_dirs = ~a/lib
-atlas_libs = openblas
-"
- (assoc-ref inputs "openblas")
- (assoc-ref inputs "openblas")
- (assoc-ref inputs "openblas"))))
- #t))
- (add-after 'install 'install-doc
- (lambda* (#:key inputs outputs #:allow-other-keys)
- (let* ((data (string-append (assoc-ref outputs "doc") "/share"))
- (doc (string-append data "/doc/" ,name "-" ,version))
- (html (string-append doc "/html"))
- (pyver ,(string-append "PYVER=" (version-major+minor
- (package-version python))))
- ;; By default it tries to run sphinx-build through the Python
- ;; interpreter which won't work with our shell wrapper.
- (sphinxbuild "SPHINXBUILD=LANG=C sphinx-build"))
- ;; Make installed package available for building the
- ;; documentation
- (add-installed-pythonpath inputs outputs)
- (with-directory-excursion "doc"
- ;; Fix generation of images for mathematical expressions.
- (substitute* (find-files "source" "conf\\.py")
- (("pngmath_use_preview = True")
- "pngmath_use_preview = False"))
- (mkdir-p html)
- (invoke "make" "html" pyver sphinxbuild)
- (with-directory-excursion "build/html"
- (for-each (lambda (file)
- (let* ((dir (dirname file))
- (tgt-dir (string-append html "/" dir)))
- (install-file file html)))
- (find-files "." ".*")))))
- #t))
- ;; Tests can only be run after the library has been installed and not
- ;; within the source directory.
- (delete 'check)
- (add-after 'install 'check
- (lambda* (#:key inputs outputs #:allow-other-keys)
- (add-installed-pythonpath inputs outputs)
- (with-directory-excursion "/tmp"
- (invoke "python" "-c"
- "import scipy; scipy.test(verbose=2)")))))))
- (home-page "https://www.scipy.org/")
- (synopsis "The Scipy library provides efficient numerical routines")
- (description "The SciPy library is one of the core packages that make up
-the SciPy stack. It provides many user-friendly and efficient numerical
-routines such as routines for numerical integration and optimization.")
- (properties `((python2-variant . ,(delay python2-scipy))))
- (license license:bsd-3)))
-
-;; Version 1.2.2 is the last version to support Python 2
-(define-public python2-scipy
- (package
- (inherit (package-with-python2
- (strip-python2-variant python-scipy)))
- (version "1.2.2")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "scipy" version))
- (sha256
- (base32
- "1cgvgin8fvckv96hjh3ikmwkra5rif51bdb75ifzf7xbil5iwcx4"))))))
-
(define-public python-socksipy-branch
(package
(name "python-socksipy-branch")
(define-public python-socksipychain
(package
(name "python-socksipychain")
- (version "2.0.15")
+ (version "2.1.0")
(source
(origin
(method git-fetch)
(file-name (git-file-name name version))
(sha256
(base32
- "1pkljnh9hfwla8sg7mil4f9zrnsqj0dbhr3crxjw3k8dnjz70dvk"))))
+ "0idm9a050rd2kbgbz2sk9ib9589kj4xh1xdnggs6xbq2v2y8f6zn"))))
(build-system python-build-system)
(arguments
`(#:tests? #f)) ; Tests try to access the network.
a simple netcat replacement with chaining support.")
(license license:bsd-3)))
-(define-public python2-socksipychain
- (package-with-python2 python-socksipychain))
-
(define-public python-pycodestyle
(package
(name "python-pycodestyle")
(define-public python-pillow
(package
(name "python-pillow")
- (version "6.1.0")
+ (version "6.2.1")
(source
(origin
(method url-fetch)
(uri (pypi-uri "Pillow" version))
(sha256
(base32
- "1pnrsz0f0n0c819v1pdr8j6rm8xvhc9f3kh1fv9xpdp9n5ygf108"))))
+ "1c8wkzc58f5wdh006jvmwdk3wxld1xgagcbdvj7iv17qi0m9fkmz"))))
(build-system python-build-system)
(native-inputs
`(("python-pytest" ,python-pytest)))
(inputs
`(("freetype" ,freetype)
("lcms" ,lcms)
- ("zlib" ,zlib)
("libjpeg" ,libjpeg)
- ("openjpeg" ,openjpeg)
("libtiff" ,libtiff)
- ("libwebp" ,libwebp)))
+ ("libwebp" ,libwebp)
+ ("openjpeg" ,openjpeg)
+ ("zlib" ,zlib)))
(propagated-inputs
`(("python-olefile" ,python-olefile)))
(arguments
(substitute* "setup.py"
(("\\['/sbin/ldconfig', '-p'\\]") "['true']"))))
(replace 'check
- (lambda* (#:key outputs inputs #:allow-other-keys)
- (begin
- (setenv "HOME" (getcwd))
- ;; Make installed package available for running the tests.
- (add-installed-pythonpath inputs outputs)
- (invoke "python" "selftest.py" "--installed")
- (invoke "python" "-m" "pytest" "-vv")))))))
+ (lambda* (#:key outputs inputs tests? #:allow-other-keys)
+ (if tests?
+ (begin
+ (setenv "HOME" (getcwd))
+ ;; Make installed package available for running the tests.
+ (add-installed-pythonpath inputs outputs)
+ (invoke "python" "selftest.py" "--installed")
+ (invoke "python" "-m" "pytest" "-vv"))
+ #t))))))
(home-page "https://python-pillow.org")
(synopsis "Fork of the Python Imaging Library")
(description
(define-public python-packaging
(package
(name "python-packaging")
- (version "19.0")
+ (version "19.2")
(source
(origin
(method url-fetch)
(uri (pypi-uri "packaging" version))
(sha256
(base32
- "1brjhygq9dz6x1kdljivkjfldi3qf5rbkqgck1bpgv9qpv8ab60c"))))
+ "0izwlz9h0bw171a1chr311g2y7n657zjaf4mq4rgm8pp9lbj9f98"))))
(build-system python-build-system)
(arguments
`(#:phases (modify-phases %standard-phases
several convenience Python scripts, including \"classic\" hex2bin and bin2hex
converters and more, those based on the library itself.")
(license license:bsd-3)))
+
+(define-public python-pykwalify
+ (package
+ (name "python-pykwalify")
+ (version "1.7.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "pykwalify" version))
+ (sha256
+ (base32
+ "1cnfzkg1b01f825ikpw2fhjclf9c8akxjfrbd1vc22x1lg2kk2vy"))))
+ (build-system python-build-system)
+ (arguments '(#:tests? #f)) ;missing dependencies
+ (propagated-inputs
+ `(("python-dateutil" ,python-dateutil)
+ ("python-docopt" ,python-docopt)
+ ("python-pyyaml" ,python-pyyaml)))
+ (home-page "https://github.com/grokzen/pykwalify")
+ (synopsis
+ "Python lib/cli for JSON/YAML schema validation")
+ (description
+ "This package provides a parser, schema validator, and data binding tool
+for YAML and JSON.")
+ (license license:expat)))
+
+(define-public python-dbusmock
+ (package
+ (name "python-dbusmock")
+ (version "0.18.3")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "python-dbusmock" version))
+ (sha256
+ (base32
+ "0hp2kyac88nh9iv6l8hlmv7s1sa1s5f1a3wc2pmlmmxnd211fjlr"))))
+ (build-system python-build-system)
+ (arguments
+ '(#:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'patch-shell-path
+ (lambda _
+ (substitute* "tests/test_code.py"
+ (("/bin/bash") (which "bash")))
+ #t)))))
+ (native-inputs
+ `(;; For tests.
+ ("dbus" ,dbus) ; for dbus-daemon
+ ("python-nose" ,python-nose)
+ ("which" ,which)))
+ (propagated-inputs
+ `(("python-dbus" ,python-dbus)
+ ("python-pygobject" ,python-pygobject)))
+ (home-page "https://github.com/martinpitt/python-dbusmock")
+ (synopsis "Python library for mock D-Bus objects")
+ (description "python-dbusmock allows for the easy creation of mock objects on
+D-Bus. This is useful for writing tests for software which talks to D-Bus
+services such as upower, systemd, logind, gnome-session or others, and it is
+hard (or impossible without root privileges) to set the state of the real
+services to what you expect in your tests.")
+ (license license:lgpl3+)))
+
+(define-public python-ujson
+ (package
+ (name "python-ujson")
+ (version "1.35")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "ujson" version))
+ (sha256
+ (base32
+ "11jz5wi7mbgqcsz52iqhpyykiaasila4lq8cmc2d54bfa3jp6q7n"))))
+ (build-system python-build-system)
+ (home-page "http://www.esn.me")
+ (synopsis
+ "Ultra fast JSON encoder and decoder for Python")
+ (description
+ "UltraJSON is an ultra fast JSON encoder and decoder written in pure C with
+ bindings for Python 2.5+ and 3.")
+ (license license:bsd-3)))
+
+(define-public python2-ujson
+ (package-with-python2 python-ujson))
HCoop / jackhill / guix / guix.git / blobdiff