diff options
Diffstat (limited to 'gnu/packages/python-xyz.scm')
| -rw-r--r-- | gnu/packages/python-xyz.scm | 277 |
1 files changed, 221 insertions, 56 deletions
diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index a4a090be7c..22c118524d 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -94,7 +94,7 @@ ;;; Copyright © 2020, 2021 Zheng Junjie <[email protected]> ;;; Copyright © 2020 EuAndreh <[email protected]> ;;; Copyright © 2021, 2022 Morgan Smith <[email protected]> -;;; Copyright © 2021 Sharlatan Hellseher <[email protected]> +;;; Copyright © 2021, 2022 Sharlatan Hellseher <[email protected]> ;;; Copyright © 2021 Ellis Kenyő <[email protected]> ;;; Copyright © 2021 LibreMiami <[email protected]> ;;; Copyright © 2021 Xinglu Chen <[email protected]> @@ -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))) |