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Merge branch 'staging' into core-updates

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Marius Bakke 2022-07-22 01:09:14 +02:00
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@ -94,7 +94,7 @@
;;; Copyright © 2020, 2021 Zheng Junjie <873216071@qq.com>
;;; Copyright © 2020 EuAndreh <eu@euandre.org>
;;; Copyright © 2021, 2022 Morgan Smith <Morgan.J.Smith@outlook.com>
;;; Copyright © 2021 Sharlatan Hellseher <sharlatanus@gmail.com>
;;; Copyright © 2021, 2022 Sharlatan Hellseher <sharlatanus@gmail.com>
;;; Copyright © 2021 Ellis Kenyő <me@elken.dev>
;;; Copyright © 2021 LibreMiami <packaging-guix@libremiami.org>
;;; Copyright © 2021 Xinglu Chen <public@yoctocell.xyz>
@ -912,6 +912,77 @@ progress bar and a percentage indicator object that let you track the progress
of a loop structure or other iterative computation.")
(license license:bsd-3)))
(define-public python-glymur
(package
(name "python-glymur")
(version "0.10.1")
(source
(origin
(method git-fetch) ; no tests data in PyPi package
(uri (git-reference
(url "https://github.com/quintusdias/glymur")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "1cq9r8vzwvds1kasy5gc2rxw034jh9l43rraps1n739072pfz6qg"))))
(build-system python-build-system)
(arguments
(list
#:phases
#~(modify-phases %standard-phases
(add-after 'unpack 'patch-library-locations
(lambda* (#:key inputs #:allow-other-keys)
;; XXX: It's a workaround for Python inability to find the
;; .so libraries with ctypes.util.find_library()
(substitute* '("glymur/config.py")
(("path = find_library\\(libname\\)")
(string-append
"if libname == \"openjp2\":\n"
" path = \""
(search-input-file inputs "/lib/libopenjp2.so") "\"\n"
" elif libname == \"tiff\":\n"
" path = \""
(search-input-file inputs "/lib/libtiff.so") "\"\n"
" elif libname == \"c\":\n"
" path = \""
(search-input-file inputs "/lib/libc.so.6") "\"\n")))))
;; TODO: implement as a feature of python-build-system (PEP-621,
;; PEP-631, PEP-660)
(replace 'build
(lambda _
(setenv "SETUPTOOLS_SCM_PRETEND_VERSION" #$version)
;; ZIP does not support timestamps before 1980.
(setenv "SOURCE_DATE_EPOCH" "315532800")
(invoke "python" "-m" "build" "--wheel" "--no-isolation" ".")))
(replace 'install
(lambda* (#:key outputs #:allow-other-keys)
(let ((whl (car (find-files "dist" "\\.whl$"))))
(invoke "pip" "--no-cache-dir" "--no-input"
"install" "--no-deps" "--prefix" #$output whl))))
(replace 'check
(lambda* (#:key tests? #:allow-other-keys)
(when tests?
;; Failing test due to inability of
;; ctypes.util.find_library() to determine library path,
;; which is patched above.
(delete-file "tests/test_config.py")
(invoke "python" "-m" "pytest" "-vv" "tests")))))))
(native-inputs
(list python-pypa-build python-pytest))
(inputs
(list openjpeg ; glymur/lib/openjp2.py
libtiff)) ; glymur/lib/tiff.py
(propagated-inputs
(list python-lxml
python-numpy
python-packaging))
(home-page "https://github.com/quintusdias/glymur")
(synopsis "Python interface to OpenJPEG and LibTIFF")
(description
"This package provides Python interface to the OpenJPEG library which
allows one to read and write JPEG 2000 files")
(license license:expat)))
(define-public python-gphoto2
(package
(name "python-gphoto2")
@ -1233,14 +1304,14 @@ by @code{binstar}, @code{binstar-build}, and @code{chalmers}.")
(define-public python-babel
(package
(name "python-babel")
(version "2.9.0")
(version "2.10.3")
(source
(origin
(method url-fetch)
(uri (pypi-uri "Babel" version))
(sha256
(base32
"018yg7g2pa6vjixx1nx41cfispgfi0azzp0a1chlycbj8jsil0ys"))))
"0l9cvfmsz0hlvcinxaf6xf2f02ldgw3xq9i1fc7lk5zf24vma53n"))))
(build-system python-build-system)
(native-inputs
(list python-freezegun python-pytest tzdata-for-tests))
@ -5107,6 +5178,34 @@ which can produce feeds in RSS 2.0, RSS 0.91, and Atom formats.")
errors when data is invalid.")
(license license:expat)))
(define-public python-pydantic-cli
(package
(name "python-pydantic-cli")
(version "4.3.0")
(source
(origin
(method git-fetch) ;for tests
(uri (git-reference
(url "https://github.com/mpkocher/pydantic-cli")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32
"1v4dx6n60rbsan5zpw2rgdih7lb3h0xclagn1p6zfwl0r9l9cvym"))))
(build-system python-build-system)
(propagated-inputs
(list python-pydantic))
(native-inputs
(list python-black
python-mypy
python-pytest))
(home-page "https://github.com/mpkocher/pydantic-cli")
(synopsis "Turn Pydantic defined data models into CLI tools")
(description
"@code{python-pydantic} enables specifying @acronym{CLI, Command Line
Interfaces} via data models provided in the JSON format.")
(license license:expat)))
(define-public python-pydocstyle
(package
(name "python-pydocstyle")
@ -5463,7 +5562,10 @@ include_dirs = ~:*~a/include~%" #$(this-package-input "openblas"))))))
;; instead of /bin/sh.
(substitute* "numpy/distutils/exec_command.py"
(("'/bin/sh'")
(format #f "~s" (search-input-file inputs "bin/bash"))))))
(format #f "~s" (search-input-file inputs "bin/bash"))))
;; Don't try to call '/bin/true' specifically.
(substitute* "numpy/core/tests/test_cpu_features.py"
(("/bin/true") (search-input-file inputs "bin/true")))))
(replace 'check
(lambda* (#:key tests? outputs inputs #:allow-other-keys)
(when tests?
@ -6356,7 +6458,7 @@ toolkits.")
(string-append info "/matplotlib-figures"))))))))
(native-inputs
(list graphviz
inkscape
inkscape/stable
python-colorspacious
python-mpl-sphinx-theme
python-scipy
@ -6897,13 +6999,13 @@ retrieve text and metadata from PDFs as well as merge entire files together.")
(define-public python-pillow
(package
(name "python-pillow")
(version "9.0.0")
(version "9.2.0")
(source (origin
(method url-fetch)
(uri (pypi-uri "Pillow" version))
(sha256
(base32
"0gjry0yqryd2678sm47jhdnbghzxn5wk8pgyaqwr4qi7x5ijjvpf"))
"011wgm1mssjchpva9wsi2a07im9czyjvik137xlp5f0g7vykdrkm"))
(modules '((guix build utils)))
(snippet '(begin
(delete-file-recursively "src/thirdparty")))))
@ -13049,47 +13151,15 @@ time.")
"and not test_execute_widgets_from_nbconvert "
"and not test_execute_multiple_notebooks ")))))))))
(inputs
(list inkscape pandoc))
(list inkscape/stable pandoc))
(native-inputs
`(("python-ipykernel" ,python-ipykernel)
;; XXX: Disabled, not in guix.
;;("python-pyppeteer" ,python-pyppeteer)
("python-pytest" ,python-pytest)
("python-pytest-cov" ,python-pytest-cov)
("python-pytest-dependency" ,python-pytest-dependency)
("texlive" ,(texlive-updmap.cfg
(list texlive-adjustbox
texlive-amsfonts
texlive-booktabs
texlive-caption
texlive-eurosym
texlive-fancyvrb
texlive-fonts-rsfs
texlive-fontspec
texlive-grffile
texlive-hyperref
texlive-iftex
texlive-jknappen
texlive-amsmath
texlive-enumitem
texlive-latex-float
texlive-latex-geometry
texlive-latex-jknapltx
texlive-latex-parskip
texlive-latex-trimspaces
texlive-latex-ucs
texlive-latex-upquote
texlive-lm
texlive-mathpazo
texlive-ms
texlive-oberdiek
texlive-stringenc
texlive-tcolorbox
texlive-titling
texlive-tools
texlive-ulem
texlive-xcolor
texlive-zapfding)))))
(list python-ipykernel
;; Adding ipywidgets would create a cycle.
;;python-ipywidgets
;; XXX: Disabled, not in guix.
;;python-pyppeteer
python-pytest
python-pytest-xdist))
(propagated-inputs
(list python-beautifulsoup4
python-bleach
@ -13429,14 +13499,14 @@ simulation, statistical modeling, machine learning and much more.")
(define-public python-chardet
(package
(name "python-chardet")
(version "4.0.0")
(version "5.0.0")
(source
(origin
(method url-fetch)
(uri (pypi-uri "chardet" version))
(sha256
(base32
"1ykr04qyhgpc0h5b7dhqw4g92b1xv7ki2ky910mhy4mlbnhm6vqd"))))
"1amqmz8731ly6f9rkbk09w4jqgmmgyxykd1bawhgrdbqzlmxys03"))))
(native-inputs
(list python-pytest))
(build-system python-build-system)
@ -13445,7 +13515,10 @@ simulation, statistical modeling, machine learning and much more.")
#~(modify-phases %standard-phases
(replace 'check
(lambda _
(invoke "pytest" "-vv")))
(invoke "pytest" "-vv" "-k"
;; Disable test that fails sporadically:
;; https://github.com/chardet/chardet/issues/256
"not test_detect_all_and_detect_one_should_agree")))
;; This package provides a 'chardetect' executable that only
;; depends on Python, so customize the wrap phase to avoid
;; adding pytest and friends in order to save size.
@ -13473,13 +13546,13 @@ automatically detect a wide range of file encodings.")
(define-public python-charset-normalizer
(package
(name "python-charset-normalizer")
(version "2.0.11")
(version "2.1.0")
(source
(origin
(method url-fetch)
(uri (pypi-uri "charset-normalizer" version))
(sha256
(base32 "071pi2kd222rjjrjdllffqv3iz4bfaj93a9bfs65907fd6fqlfcq"))))
(base32 "04zlajr77f6c7ai59l46as1idi0jjgbvj72lh4v5wfpz2s070pjp"))))
(build-system python-build-system)
(arguments
(list #:phases
@ -16059,7 +16132,27 @@ graphviz.")
(snippet
'(begin
;; unbunding libev and c-ares
(delete-file-recursively "deps")))))
(delete-file-recursively "deps")
;; Remove cythonized files.
(with-directory-excursion "src/gevent"
(for-each delete-file
(append (list "resolver/cares.c"
"queue.c"
"local.c"
"libev/corecext.h"
"libev/corecext.c"
"greenlet.c"
"event.c"
"_waiter.c"
"_tracer.c"
"_semaphore.c"
"_imap.c"
"_ident.c"
"_hub_primitives.c"
"_hub_local.c"
"_greenlet_primitives.c"
"_abstract_linkable.c")
(find-files "." "\\.html$"))))))))
(build-system python-build-system)
(arguments
`(#:modules ((ice-9 ftw)
@ -16132,7 +16225,11 @@ graphviz.")
"test__doctests.py"
"test__all__.py"
"test___config.py"
"test__execmodules.py")))
"test__execmodules.py"
;; This test contains 'test_unlink', which
;; fails on i686 (see:
;; https://github.com/gevent/gevent/issues/1558).
"test__core_stat.py")))
(call-with-output-file "skipped_tests.txt"
(lambda (port)
(format port "~a~%"
@ -16147,8 +16244,9 @@ graphviz.")
(propagated-inputs
(list python-greenlet python-zope-event python-zope-interface))
(native-inputs
;; For tests.
(list python-dnspython python-psutil python-objgraph))
(list python-cython
;; For tests.
python-dnspython python-psutil python-objgraph))
(inputs
(list c-ares libev))
(home-page "https://www.gevent.org/")
@ -18911,6 +19009,12 @@ from the header, as well as section details and data available.")
(build-system python-build-system)
(arguments
`(#:phases (modify-phases %standard-phases
(add-after 'unpack 'remove-test-hypothesis-deadlines
(lambda _
(substitute* "tests/test_make.py"
(("assume, given") "assume, given, settings")
(("( +)@given" all spaces)
(string-append spaces "@settings(deadline=None)\n" all)))))
(replace 'check
(lambda* (#:key tests? #:allow-other-keys)
(when tests?
@ -29988,6 +30092,26 @@ profile. It supports:
Currently, Linux is the only platform supported by this library.")
(license license:expat)))
(define-public python-clrprint
(package
(name "python-clrprint")
(version "2.0.1")
(source (origin
(method url-fetch)
(uri (pypi-uri "clrprint" version))
(sha256
(base32
"0xfn8d1by2w7pjiji887qljk1avn4fylbnz1mj28gysm5g0zvy43"))))
(build-system python-build-system)
(arguments '(#:tests? #f)) ;there are no tests
(propagated-inputs (list python-colorama python-termcolor))
(home-page "https://github.com/AbhijithAJ/clrprint")
(synopsis "Print colorful output in the terminal")
(description "@code{clrprint} is developed to print colorful output in the
terminal. It has red, blue, green, yellow, purple and black/white (default)
colors.")
(license license:expat)))
(define-public python-musical-scales
(package
(name "python-musical-scales")
@ -30037,3 +30161,44 @@ with it, and it also implements recommendations from the
and names, built from Unicode CLDR and the IANA subtag registry, if you
install @code{python-language-data}.")
(license license:expat)))
(define-public python-geomet
(package
(name "python-geomet")
(version "0.3.0")
(source (origin
(method url-fetch)
(uri (pypi-uri "geomet" version))
(sha256
(base32
"06rfvadx5dr5xrgsc5bsmqil9c9kff6i13xl988gy0gfg0cl2lnb"))))
(build-system python-build-system)
(propagated-inputs (list python-click python-six))
(home-page "https://github.com/geomet/geomet")
(synopsis "Convert GeoJSON to WKT/WKB (Well-Known Text/Binary) or
GeoPackage Binary")
(description "This package provides utilities and functions for converting
GeoJSON to WKT/WKB (Well-Known Text/Binary) or GeoPackage Binary, and vice
versa. Extended WKB/WKT are also supported.")
(license license:asl2.0)))
(define-public python-bsdiff4
(package
(name "python-bsdiff4")
(version "1.2.2")
(home-page "https://github.com/ilanschnell/bsdiff4")
(source (origin
(method git-fetch)
(uri (git-reference
(url home-page)
(commit version)))
(file-name (git-file-name name version))
(sha256
(base32
"1fa0vkmbr0a9xifq7i5gfcf7ifn739i1fdij8awynm299fsqvvhx"))))
(build-system python-build-system)
(synopsis "Binary diff and patch using the BSDIFF4 format")
(description "This package provides a Python library for the @code{bsdiff}
binary diff utility. It also provides two command-line tools, @code{bsdiff4}
and @code{bspatch4}.")
(license license:bsd-2)))