diff options
Diffstat (limited to 'gnu/packages/python-xyz.scm')
| -rw-r--r-- | gnu/packages/python-xyz.scm | 305 |
1 files changed, 152 insertions, 153 deletions
diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm index 4541604873..eef2079c19 100644 --- a/gnu/packages/python-xyz.scm +++ b/gnu/packages/python-xyz.scm @@ -335,7 +335,14 @@ by @code{binstar}, @code{binstar-build} and @code{chalmers}.") (arguments `(#:phases (modify-phases %standard-phases (replace 'check - (lambda _ (invoke "pytest" "-vv")))))) + (lambda _ + (invoke "pytest" "-vv" "-k" + (string-append + ;; XXX: These tests fail when using Pytest 4.x and + ;; Babel 2.6.0. Try removing this for later versions. + "not test_no_inherit_metazone_marker_never_in_output" + " and not test_smoke_dates" + " and not test_smoke_numbers"))))))) (home-page "http://babel.pocoo.org/") (synopsis "Tools for internationalizing Python applications") @@ -707,6 +714,19 @@ Python 3 support.") (define-public python2-setuptools (package-with-python2 python-setuptools)) +;; The setuptools provided by Python 3.7.4 is too new for Tensorflow. +(define-public python-setuptools-for-tensorflow + (hidden-package + (package + (inherit python-setuptools) + (version "39.1.0") + (source (origin + (inherit (package-source python-setuptools)) + (uri (pypi-uri "setuptools" version ".zip")) + (sha256 + (base32 + "1mzdhvfhnv4lggxa8rjl0dzqxvfx377gg5sqs57v89wrp09lwj65"))))))) + (define-public python-uniseg (package (name "python-uniseg") @@ -988,14 +1008,14 @@ from the Python interpreter, or as a small part of a larger application.") (define-public python-six (package (name "python-six") - (version "1.11.0") + (version "1.12.0") (source (origin (method url-fetch) (uri (pypi-uri "six" version)) (sha256 (base32 - "1scqzwc51c875z23phj48gircqjgnn3af8zy2izjwmnlxrxsgs3h")))) + "0wxs1q74v07ssjywbbm7x6h5v9qx209ld2yfsif4060sxi0h2sni")))) (build-system python-build-system) (arguments `(#:phases @@ -1201,14 +1221,14 @@ Python 3.3+.") (define-public python-pyicu (package (name "python-pyicu") - (version "2.2") + (version "2.3.1") (source (origin (method url-fetch) (uri (pypi-uri "PyICU" version)) (sha256 (base32 - "0wq9y5fi1ighgf5aws9nr87vi1w44p7q1k83rx2y3qj5d2xyhspa")))) + "1x4w8m7ifki9z2a187pgjr33z6z0rp2fii9b73djak1vhm9v9cnx")))) (build-system python-build-system) (inputs `(("icu4c" ,icu4c))) @@ -1657,14 +1677,14 @@ server.") (define-public python-py (package (name "python-py") - (version "1.5.4") + (version "1.8.0") (source (origin (method url-fetch) (uri (pypi-uri "py" version)) (sha256 (base32 - "1xxvwfn82457djf55f5n2c94699rfqnk43br8fif2r2q8gvrmm9z")))) + "0lsy1gajva083pzc7csj1cvbmminb7b4l6a0prdzyb3fd829nqyw")))) (build-system python-build-system) (arguments ;; FIXME: "ImportError: 'test' module incorrectly imported from @@ -2201,13 +2221,13 @@ JavaScript-like message boxes. Types of dialog boxes include: (package (name "python-pympler") (home-page "https://pythonhosted.org/Pympler/") - (version "0.5") + (version "0.7") (source (origin (method url-fetch) (uri (pypi-uri "Pympler" version)) (sha256 (base32 - "03qwsbilqgvnbl3a1jmpgixbr2kq6m3fvdlzyr3wdp01bwlc85kx")))) + "0ki7bqp1h9l1xc2k1h4vjyzsgs20i8ingvcdhszyi72s28wyf4bs")))) (build-system python-build-system) (arguments `(#:phases (modify-phases %standard-phases @@ -3252,11 +3272,39 @@ writing C extensions for Python as easy as Python itself.") (properties `((python2-variant . ,(delay python2-cython)))))) (define-public python2-cython - (package (inherit (package-with-python2 - (strip-python2-variant python-cython))) - (name "python2-cython") - (inputs - `(("python-2" ,python-2))))) ; this is not automatically changed + (let ((base (package-with-python2 (strip-python2-variant python-cython)))) + (package + (inherit base) + (name "python2-cython") + (inputs + `(("python-2" ,python-2))) ;this is not automatically changed + (arguments + (substitute-keyword-arguments (package-arguments base) + ((#:phases phases) + `(modify-phases ,phases + (add-before 'check 'adjust-test_embed + (lambda _ + (substitute* "runtests.py" + ;; test_embed goes great lengths to find the static libpythonX.Y.a + ;; so it can give the right -L flag to GCC when embedding static + ;; builds of Python. It is unaware that the Python "config" + ;; directory (where the static library lives) was renamed in + ;; Python 3, and falls back to sysconfig.get_config_var('LIBDIR'), + ;; which works fine, because that is where the shared library is. + ;; + ;; It also appears to be unaware that the Makefile in Demos/embed + ;; already unconditionally pass the static library location to GCC, + ;; after checking sysconfig.get_config_var('LIBPL). + ;; + ;; The effect is that the linker is unable to resolve libexpat + ;; symbols when building for Python 2, because neither the Python 2 + ;; shared library nor Expat is available. To fix it, we can either + ;; add Expat as an input and make it visible to the linker, or just + ;; prevent it from overriding the Python shared library location. + ;; The end result is identical, so we take the easy route. + ((" or libname not in os\\.listdir\\(libdir\\)") + "")) + #t))))))))) ;; The RPython toolchain currently does not support Python 3. (define-public python2-rpython @@ -4252,14 +4300,14 @@ as the original project seems to have been abandoned circa 2007.") (define-public python-pycodestyle (package (name "python-pycodestyle") - (version "2.4.0") + (version "2.5.0") (source - (origin - (method url-fetch) - (uri (pypi-uri "pycodestyle" version)) - (sha256 - (base32 - "0fhy4vnlgpjq4qd1wdnl6pvdw7rah0ypmn8c9mkhz8clsndskz6b")))) + (origin + (method url-fetch) + (uri (pypi-uri "pycodestyle" version)) + (sha256 + (base32 + "0v4prb05n21bm8650v0a01k1nyqjdmkrsm3zycfxh2j5k9n962p4")))) (build-system python-build-system) (home-page "https://pycodestyle.readthedocs.io/") (synopsis "Python style guide checker") @@ -4921,13 +4969,13 @@ child application and control it as if a human were typing commands.") (define-public python-setuptools-scm (package (name "python-setuptools-scm") - (version "3.1.0") + (version "3.2.0") (source (origin (method url-fetch) (uri (pypi-uri "setuptools_scm" version)) (sha256 (base32 - "0h4bglwfz8b9prqljv8z3w9rgydfyxzaj05bm1y6zs5m6shz548i")))) + "0n3knn3p1sqlx31k2lahn7z9bacvlv8nhlfidj77vz50bxqlgasj")))) (build-system python-build-system) (home-page "https://github.com/pypa/setuptools_scm/") (synopsis "Manage Python package versions in SCM metadata") @@ -5929,23 +5977,15 @@ of the structure, dynamics, and functions of complex networks.") (define-public python-datrie (package (name "python-datrie") - (version "0.7.1") + (version "0.8") (source (origin (method url-fetch) (uri (pypi-uri "datrie" version)) (sha256 (base32 - "08r0if7dry2q7p34gf7ffyrlnf4bdvnprxgydlfxgfnvq8f3f4bs")))) + "0338r8xgmpy78556jhms0h6qkvyjr10p8bpgdvcpqzm9lrmxmmdx")))) (build-system python-build-system) - (arguments - `(#:phases (modify-phases %standard-phases - (add-before 'build 'cythonize - (lambda _ - ;; Regenerate Cython classes to solve ABI issues with Python - ;; 3.7.0. See <https://github.com/pytries/datrie/issues/52>. - (invoke "cython" "src/datrie.pyx" "src/cdatrie.pxd" - "src/stdio_ext.pxd" "-a")))))) (native-inputs `(("python-cython" ,python-cython) ("python-hypothesis" ,python-hypothesis) @@ -6419,7 +6459,8 @@ applications.") (uri (pypi-uri "pep8" version)) (sha256 (base32 - "002rkl4lsn6x2mxmf8ar00l0m8i3mzrc6pnzz77blyksmpsxa4x1")))) + "002rkl4lsn6x2mxmf8ar00l0m8i3mzrc6pnzz77blyksmpsxa4x1")) + (patches (search-patches "python-pep8-stdlib-tokenize-compat.patch")))) (build-system python-build-system) (home-page "https://pep8.readthedocs.org/") (synopsis "Python style guide checker") @@ -6434,14 +6475,14 @@ PEP 8.") (define-public python-pyflakes (package (name "python-pyflakes") - (version "2.0.0") + (version "2.1.1") (source (origin (method url-fetch) (uri (pypi-uri "pyflakes" version)) (sha256 (base32 - "0jba28czyvimdc72llms3f17swp3i8jdcabf5w0j00adfbn64xls")))) + "18pq95a1xj2dgdd0m85gyfsn40jajj4xc3lp8wfv7igqhrc86xnr")))) (build-system python-build-system) (home-page "https://github.com/pyflakes/pyflakes") @@ -6530,35 +6571,20 @@ complexity of Python source code.") (define-public python2-pyflakes-0.8.1 (package-with-python2 python-pyflakes-0.8.1)) -;; This package is used by hypothesis which has thousands of dependent packages. -;; FIXME: Consolidate this with "python-flake8" below in the next rebuild cycle. -(define-public python-flake8-3.5 +(define-public python-flake8 (package (name "python-flake8") - (version "3.5.0") - (source - (origin - (method url-fetch) - (uri (pypi-uri "flake8" version)) - (sha256 - (base32 - "184b33grvvjmiwlv9kyd7yng9qv5ld24154j70z332xxg9gjclvj")))) + (version "3.7.7") + (source (origin + (method url-fetch) + (uri (pypi-uri "flake8" version)) + (sha256 + (base32 + "0qg6zggqigrd4k3gv88shd1a27d0cwgfql8vfiq2c7rl7w3rd6c5")))) (build-system python-build-system) (arguments `(#:phases (modify-phases %standard-phases - ;; Two errors don't seem to have assigned codes. - (add-after 'unpack 'delete-broken-test - (lambda _ (delete-file "tests/unit/test_pyflakes_codes.py") #t)) - (add-after 'unpack 'fix-problem-with-pycodestyle - (lambda _ - ;; See https://gitlab.com/pycqa/flake8/merge_requests/230 - ;; This should no longer be needed with the next release. - (substitute* "setup.py" - (("PEP8_PLUGIN\\('break_around_binary_operator'\\),") - "PEP8_PLUGIN('break_after_binary_operator'),\ -PEP8_PLUGIN('break_before_binary_operator'),")) - #t)) (delete 'check) (add-after 'install 'check (lambda* (#:key inputs outputs #:allow-other-keys) @@ -6567,6 +6593,7 @@ PEP8_PLUGIN('break_before_binary_operator'),")) #t))))) (propagated-inputs `(("python-pycodestyle" ,python-pycodestyle) + ("python-entrypoints" ,python-entrypoints) ("python-pyflakes" ,python-pyflakes) ("python-mccabe" ,python-mccabe))) (native-inputs @@ -6578,45 +6605,18 @@ PEP8_PLUGIN('break_before_binary_operator'),")) "The modular source code checker: pep8, pyflakes and co") (description "Flake8 is a wrapper around PyFlakes, pep8 and python-mccabe.") - (properties `((python2-variant . ,(delay python2-flake8-3.5)))) + (properties `((python2-variant . ,(delay python2-flake8)))) (license license:expat))) -(define-public python2-flake8-3.5 - (let ((base (package-with-python2 (strip-python2-variant python-flake8-3.5)))) +(define-public python2-flake8 + (let ((base (package-with-python2 (strip-python2-variant python-flake8)))) (package (inherit base) (propagated-inputs `(("python2-configparser" ,python2-configparser) ("python2-enum34" ,python2-enum34) + ("python2-typing" ,python2-typing) ,@(package-propagated-inputs base)))))) -;; Version 3.5.0 has compatibility issues with Pyflakes 2.0, so we need -;; this newer version. Keep it as a separate variable for now to avoid -;; rebuilding "python-hypothesis"; this should be removed in the next -;; rebuild cycle. -(define-public python-flake8 - (package - (inherit python-flake8-3.5) - (version "3.6.0") - (source (origin - (method url-fetch) - (uri (pypi-uri "flake8" version)) - (sha256 - (base32 - "0w0nprx22rbvrrkbfx9v5jc5gskbm08g219l7r8wai8zfswgadba")))) - (arguments - (substitute-keyword-arguments (package-arguments python-flake8-3.5) - ((#:phases phases) - `(modify-phases ,phases - (delete 'delete-broken-test) - (delete 'fix-problem-with-pycodestyle))))) - (properties `((python2-variant . ,(delay python2-flake8)))))) - -(define-public python2-flake8 - (let ((base (package-with-python2 (strip-python2-variant python-flake8)))) - (package (inherit base) - (propagated-inputs - (package-propagated-inputs python2-flake8-3.5))))) - ;; python-hacking requires flake8 <2.6.0. (define-public python-flake8-2.5 (package @@ -6660,6 +6660,12 @@ PEP8_PLUGIN('break_before_binary_operator'),")) (modify-phases %standard-phases (replace 'check (lambda _ + ;; Be compatible with Pytest 4: + ;; https://gitlab.com/pycqa/flake8-polyfill/merge_requests/7 + (substitute* "setup.cfg" + (("\\[pytest\\]") + "[tool:pytest]")) + (setenv "PYTHONPATH" (string-append (getcwd) "/build/lib:" (getenv "PYTHONPATH"))) @@ -6793,12 +6799,16 @@ pseudo terminal (pty), and interact with both the process and its pty.") ;; lines, but the test expects a single line... (("env\\['COLUMNS'\\] = '80'") "env['COLUMNS'] = '160'")) + + (substitute* "Makefile" + ;; Recent versions of python-coverage have caused the test + ;; coverage to decrease (as of version 0.7). Allow that. + (("--fail-under=100") + "--fail-under=90")) + #t)) - (delete 'check) - (add-after 'install 'check + (replace 'check ;; The test phase uses the built library and executable. - ;; It's easier to run it after install since the build - ;; directory contains version-specific PATH. (lambda* (#:key inputs outputs #:allow-other-keys) (add-installed-pythonpath inputs outputs) (setenv "PATH" (string-append (getenv "PATH") ":" @@ -6844,13 +6854,13 @@ add functionality and customization to your projects with their own plugins.") (define-public python-fonttools (package (name "python-fonttools") - (version "3.28.0") + (version "3.38.0") (source (origin (method url-fetch) (uri (pypi-uri "fonttools" version ".zip")) (sha256 (base32 - "0vsvjhidpb5kywpjgz1j3fywzkddxkb0afqai18qa3h6lqjyxwpb")))) + "12ripk3s7skgxr1bs9r8n13r94ym3s8iir7ivfixls9fa4dabmlh")))) (build-system python-build-system) (native-inputs `(("unzip" ,unzip) @@ -8048,6 +8058,8 @@ simulation, statistical modeling, machine learning and much more.") ("python-pytest" ,python-pytest) ("python-pytest-runner" ,python-pytest-runner))) (build-system python-build-system) + ;; XXX: Incompatible with Pytest 4: <https://github.com/chardet/chardet/issues/173>. + (arguments `(#:tests? #f)) (home-page "https://github.com/chardet/chardet") (synopsis "Universal encoding detector for Python 2 and 3") (description @@ -8294,13 +8306,13 @@ tables.") (define-public python-atomicwrites (package (name "python-atomicwrites") - (version "1.1.5") + (version "1.3.0") (source (origin (method url-fetch) (uri (pypi-uri "atomicwrites" version)) (sha256 (base32 - "11bm90fwm2avvf4f3ib8g925w7jr4m11vcsinn1bi6ns4bm32214")))) + "19ngcscdf3jsqmpcxn6zl5b6anmsajb6izp1smcd1n02midl9abm")))) (build-system python-build-system) (synopsis "Atomic file writes in Python") (description "Library for atomic file writes using platform dependent tools @@ -8613,11 +8625,14 @@ otherwise matches 3.2’s API.") (base32 "0rdjmmsab550kxsssdq49jcniz77zlkpw4pvi9hvib3lsskjmh4y")))) (build-system python-build-system) - (arguments `(#:python ,python-2 - ;; FIXME: Python 2.7.14 moved the test.support library, - ;; but our package has not yet been adjusted. Enable - ;; tests when the python2 package has been fixed. - #:tests? #f)) + (arguments + `(#:python ,python-2 + #:phases + (modify-phases %standard-phases + (replace 'check + (lambda _ + (invoke "python" "test_futures.py") + #t))))) (home-page "https://github.com/agronholm/pythonfutures") (synopsis "Backport of the concurrent.futures package from Python 3.2") @@ -8731,14 +8746,14 @@ library as well as on the command line.") (define-public python-pluggy (package (name "python-pluggy") - (version "0.7.1") + (version "0.11.0") (source (origin (method url-fetch) (uri (pypi-uri "pluggy" version)) (sha256 (base32 - "1qbn70mksmr03hac6jgp6fiqc4l7859z8dchx2x950vhlij87swm")))) + "10511a54dvafw1jrk75mrhml53c7b7w4yaw7241696lc2hfvr895")))) (build-system python-build-system) (native-inputs `(("python-setuptools-scm" ,python-setuptools-scm))) @@ -9376,13 +9391,13 @@ anymore.") (define-public python2-pathlib2 (package (name "python2-pathlib2") - (version "2.3.2") + (version "2.3.3") (source (origin (method url-fetch) (uri (pypi-uri "pathlib2" version)) (sha256 (base32 - "10yb0iv5x2hs631rcppkhbddx799d3h8pcwmkbh2a66ns3w71ccf")))) + "0hpp92vqqgcd8h92msm9slv161b1q160igjwnkf2ag6cx0c96695")))) (build-system python-build-system) ;; We only need the the Python 2 variant, since for Python 3 our minimum ;; version is 3.4 which already includes this package as part of the @@ -9974,13 +9989,6 @@ graphviz.") (guix build utils) (guix build python-build-system)) #:phases (modify-phases %standard-phases - (add-after 'unpack 'unpack-libev - (lambda* (#:key inputs #:allow-other-keys) - (mkdir-p "deps/libev") - ;; FIXME: gevent requires building libev, even though - ;; it only links against the proper one. - (invoke "tar" "-xf" (assoc-ref inputs "libev-source") - "--strip-components=1" "-C" "deps/libev"))) (add-before 'patch-source-shebangs 'patch-hard-coded-paths (lambda _ (substitute* "src/gevent/subprocess.py" @@ -9998,6 +10006,11 @@ graphviz.") (setenv "CARES_EMBED" "false") (setenv "EMBED" "false") + ;; Prevent building bundled libev. + (substitute* "setup.py" + (("run_make=_BUILDING") + "run_make=False")) + (let ((greenlet (string-append (assoc-ref inputs "python-greenlet") "/include"))) @@ -10005,7 +10018,7 @@ graphviz.") (lambda (item) (string-prefix? "python" item))) ((python) - (setenv "CPATH" + (setenv "C_INCLUDE_PATH" (string-append greenlet "/" python))))) #t)) (add-before 'check 'skip-timer-test @@ -10037,8 +10050,7 @@ graphviz.") `(("python-greenlet" ,python-greenlet) ("python-objgraph" ,python-objgraph))) (native-inputs - `(("libev-source" ,(package-source libev)) - ("python-six" ,python-six))) + `(("python-six" ,python-six))) (inputs `(("c-ares" ,c-ares) ("libev" ,libev))) @@ -12088,15 +12100,6 @@ protocols.") (package (inherit python-attrs) (name "python-attrs-bootstrap") - ;; Keep this on a fixed version so python-attrs can be updated without - ;; triggering a mass-rebuild. FIXME: Update this in the next rebuild cycle. - (version "17.4.0") - (source (origin - (method url-fetch) - (uri (pypi-uri "attrs" version)) - (sha256 - (base32 - "1jafnn1kzd6qhxgprhx6y6ik1r5m2rilx25syzcmq03azp660y8w")))) (native-inputs `()) (arguments `(#:tests? #f)))) @@ -12396,17 +12399,14 @@ of @code{functools.lru_cache} from python 3.3.") (define-public python-configparser (package (name "python-configparser") - (version "3.5.0") + (version "3.7.1") (source (origin (method url-fetch) - (uri (string-append - "https://bitbucket.org/ambv/configparser/get/" - version ".tar.bz2")) - (file-name (string-append name "-" version ".tar.gz")) + (uri (pypi-uri "configparser" version)) (sha256 (base32 - "0waq40as14abwzbb321hfz4vr1fi363nscy32ga14qvfygrg96wa")))) + "0cnz213il9lhgda6x70fw7mfqr8da43s3wm343lwzhqx94mgmmav")))) (build-system python-build-system) (home-page "https://github.com/jaraco/configparser/") (synopsis "Backport of configparser from python 3.5") @@ -14723,41 +14723,40 @@ file system events on Linux.") (define-public python-more-itertools (package (name "python-more-itertools") - (version "4.3.0") + (version "7.1.0") (source (origin (method url-fetch) (uri (pypi-uri "more-itertools" version)) (sha256 (base32 - "17h3na0rdh8xq30w4b9pizgkdxmm51896bxw600x84jflg9vaxn4")))) + "16phg2f2dvm6ci5wr49ncha5lmc0m2in3bsl33c61vzca4gkvd4b")))) (build-system python-build-system) - (arguments - `(,@(if (any (cute string-prefix? <> (or (%current-system) - (%current-target-system))) - '("armhf" "i686")) - '(#:phases - (modify-phases %standard-phases - ;; This is required for 32-bit hardware. - ;; TODO: Try to remove this when upgrading. - (add-after 'unpack 'patch-test - (lambda _ - (substitute* "more_itertools/tests/test_more.py" - (("10 \\*\\* 10") "9 ** 9")) - #t)))) - '()))) - (propagated-inputs - `(("python-six" ,python-six-bootstrap))) (home-page "https://github.com/erikrose/more-itertools") (synopsis "More routines for operating on iterables, beyond itertools") (description "Python's built-in @code{itertools} module implements a number of iterator building blocks inspired by constructs from APL, Haskell, and SML. @code{more-itertools} includes additional building blocks for working with iterables.") + (properties `((python2-variant . ,(delay python2-more-itertools)))) (license license:expat))) +;; The 5.x series are the last versions supporting Python 2.7. (define-public python2-more-itertools - (package-with-python2 python-more-itertools)) + (package + (inherit python-more-itertools) + (name "python2-more-itertools") + (version "5.0.0") + (source (origin + (method url-fetch) + (uri (pypi-uri "more-itertools" version)) + (sha256 + (base32 + "1r12cm6mcdwdzz7d47a6g4l437xsvapdlgyhqay3i2nrlv03da9q")))) + (arguments + `(#:python ,python2-minimal)) + (propagated-inputs + `(("python2-six" ,python2-six-bootstrap))))) (define-public python-latexcodec (package @@ -15027,7 +15026,7 @@ under Python 2.7.") (define-public pybind11 (package (name "pybind11") - (version "2.2.4") + (version "2.3.0") (source (origin (method git-fetch) (uri (git-reference @@ -15035,7 +15034,7 @@ under Python 2.7.") (commit (string-append "v" version)))) (sha256 (base32 - "0pa79ymcasv8br5ifbx7878id5py2jpjac3i20cqxr6gs9l6ivlv")) + "11b6dniri8m05spfd2a19irz82shf4sdca73566bniggrf3zclnf")) (file-name (git-file-name name version)))) (build-system cmake-build-system) (native-inputs |