gnu/packages/python-science.scm

   1 ;;; GNU Guix --- Functional package management for GNU
   2 ;;; Copyright © 2015, 2016, 2020, 2021 Ricardo Wurmus <rekado@elephly.net>
   3 ;;; Copyright © 2015 Federico Beffa <beffa@fbengineering.ch>
   4 ;;; Copyright © 2016 Ben Woodcroft <donttrustben@gmail.com>
   5 ;;; Copyright © 2016 Hartmut Goebel <h.goebel@crazy-compilers.com>
   6 ;;; Copyright © 2016 Efraim Flashner <efraim@flashner.co.il>
   7 ;;; Copyright © 2016, 2017, 2018, 2019, 2020 Marius Bakke <mbakke@fastmail.com>
   8 ;;; Copyright © 2019 Tobias Geerinckx-Rice <me@tobias.gr>
   9 ;;; Copyright © 2019 Maxim Cournoyer <maxim.cournoyer@gmail.com>
  10 ;;; Copyright © 2019 Giacomo Leidi <goodoldpaul@autistici.org>
  11 ;;; Copyright © 2020 Pierre Langlois <pierre.langlois@gmx.com>
  12 ;;; Copyright © 2020, 2021 Vinicius Monego <monego@posteo.net>
  13 ;;; Copyright © 2021 Greg Hogan <code@greghogan.com>
  14 ;;;
  15 ;;; This file is part of GNU Guix.
  16 ;;;
  17 ;;; GNU Guix is free software; you can redistribute it and/or modify it
  18 ;;; under the terms of the GNU General Public License as published by
  19 ;;; the Free Software Foundation; either version 3 of the License, or (at
  20 ;;; your option) any later version.
  21 ;;;
  22 ;;; GNU Guix is distributed in the hope that it will be useful, but
  23 ;;; WITHOUT ANY WARRANTY; without even the implied warranty of
  24 ;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
  25 ;;; GNU General Public License for more details.
  26 ;;;
  27 ;;; You should have received a copy of the GNU General Public License
  28 ;;; along with GNU Guix.  If not, see <http://www.gnu.org/licenses/>.
  29
  30 (define-module (gnu packages python-science)
  31   #:use-module ((guix licenses) #:prefix license:)
  32   #:use-module (gnu packages)
  33   #:use-module (gnu packages base)
  34   #:use-module (gnu packages check)
  35   #:use-module (gnu packages gcc)
  36   #:use-module (gnu packages maths)
  37   #:use-module (gnu packages perl)
  38   #:use-module (gnu packages python)
  39   #:use-module (gnu packages python-build)
  40   #:use-module (gnu packages python-check)
  41   #:use-module (gnu packages python-web)
  42   #:use-module (gnu packages python-xyz)
  43   #:use-module (gnu packages sphinx)
  44   #:use-module (gnu packages time)
  45   #:use-module (gnu packages xdisorg)
  46   #:use-module (gnu packages xml)
  47   #:use-module (gnu packages xorg)
  48   #:use-module (guix packages)
  49   #:use-module (guix download)
  50   #:use-module (guix utils)
  51   #:use-module (guix build-system python))
  52
  53 (define-public python-scipy
  54   (package
  55     (name "python-scipy")
  56     (version "1.6.0")
  57     (source
  58      (origin
  59        (method url-fetch)
  60        (uri (pypi-uri "scipy" version))
  61        (sha256
  62         (base32 "0rh5b1rwdcvvagld8vpxnpaibszy1skpx39a0fwzd5gx5pwcjvfb"))))
  63     (build-system python-build-system)
  64     (propagated-inputs
  65      `(("python-numpy" ,python-numpy)
  66        ("python-matplotlib" ,python-matplotlib)
  67        ("python-pyparsing" ,python-pyparsing)))
  68     (inputs
  69      `(("lapack" ,lapack)
  70        ("openblas" ,openblas)
  71        ("pybind11" ,pybind11)))
  72     (native-inputs
  73      `(("python-cython" ,python-cython)
  74        ("python-pytest" ,python-pytest)
  75        ("python-sphinx" ,python-sphinx)
  76        ("python-numpydoc" ,python-numpydoc)
  77        ("gfortran" ,gfortran)
  78        ("perl" ,perl)
  79        ("which" ,which)))
  80     (outputs '("out" "doc"))
  81     (arguments
  82      `(#:phases
  83        (modify-phases %standard-phases
  84          (add-before 'build 'change-home-dir
  85            (lambda _
  86              ;; Change from /homeless-shelter to /tmp for write permission.
  87              (setenv "HOME" "/tmp")
  88              #t))
  89          (add-after 'unpack 'disable-broken-tests
  90            (lambda _
  91              (substitute* "scipy/sparse/linalg/dsolve/tests/test_linsolve.py"
  92                (("^( +)def test_threads_parallel\\(self\\):" m indent)
  93                 (string-append indent
  94                                "@pytest.mark.skip(reason=\"Disabled by Guix\")\n"
  95                                m)))
  96              (substitute* "scipy/sparse/linalg/eigen/arpack/tests/test_arpack.py"
  97                (("^def test_parallel_threads\\(\\):" m)
  98                 (string-append "@pytest.mark.skip(reason=\"Disabled by Guix\")\n"
  99                                m)))
 100              #t))
 101          (add-before 'build 'configure-openblas
 102            (lambda* (#:key inputs #:allow-other-keys)
 103              (call-with-output-file "site.cfg"
 104                (lambda (port)
 105                  (format port
 106                          "[blas]
 107 libraries = openblas
 108 library_dirs = ~a/lib
 109 include_dirs = ~a/include
 110
 111 # backslash-n to make emacs happy
 112 \n[atlas]
 113 library_dirs = ~a/lib
 114 atlas_libs = openblas
 115 "
 116                          (assoc-ref inputs "openblas")
 117                          (assoc-ref inputs "openblas")
 118                          (assoc-ref inputs "openblas"))))
 119              #t))
 120          (add-after 'install 'install-doc
 121            (lambda* (#:key inputs outputs #:allow-other-keys)
 122              (let* ((data (string-append (assoc-ref outputs "doc") "/share"))
 123                     (doc (string-append data "/doc/" ,name "-" ,version))
 124                     (html (string-append doc "/html"))
 125                     (pyver ,(string-append "PYVER=" (version-major+minor
 126                                                      (package-version python))))
 127                     ;; By default it tries to run sphinx-build through the Python
 128                     ;; interpreter which won't work with our shell wrapper.
 129                     (sphinxbuild "SPHINXBUILD=LANG=C sphinx-build"))
 130                ;; Make installed package available for building the
 131                ;; documentation
 132                (add-installed-pythonpath inputs outputs)
 133                (with-directory-excursion "doc"
 134                  ;; Fix generation of images for mathematical expressions.
 135                  (substitute* (find-files "source" "conf\\.py")
 136                    (("pngmath_use_preview = True")
 137                     "pngmath_use_preview = False"))
 138                  (mkdir-p html)
 139                  (invoke "make" "html" pyver sphinxbuild)
 140                  (with-directory-excursion "build/html"
 141                    (for-each (lambda (file)
 142                                (let* ((dir (dirname file))
 143                                       (tgt-dir (string-append html "/" dir)))
 144                                  (install-file file html)))
 145                              (find-files "." ".*")))))
 146              #t))
 147          ;; Tests can only be run after the library has been installed and not
 148          ;; within the source directory.
 149          (delete 'check)
 150          (add-after 'install 'check
 151            (lambda* (#:key inputs outputs #:allow-other-keys)
 152              (add-installed-pythonpath inputs outputs)
 153              (with-directory-excursion "/tmp"
 154                (invoke "python" "-c"
 155                        "import scipy; scipy.test(verbose=2)")))))))
 156     (home-page "https://www.scipy.org/")
 157     (synopsis "The Scipy library provides efficient numerical routines")
 158     (description "The SciPy library is one of the core packages that make up
 159 the SciPy stack.  It provides many user-friendly and efficient numerical
 160 routines such as routines for numerical integration and optimization.")
 161     (properties `((python2-variant . ,(delay python2-scipy))))
 162     (license license:bsd-3)))
 163
 164 ;; Version 1.2.2 is the last version to support Python 2
 165 (define-public python2-scipy
 166   (package
 167     (inherit (package-with-python2
 168               (strip-python2-variant python-scipy)))
 169     (version "1.2.2")
 170     (source
 171      (origin
 172        (method url-fetch)
 173        (uri (pypi-uri "scipy" version))
 174        (sha256
 175         (base32
 176          "1cgvgin8fvckv96hjh3ikmwkra5rif51bdb75ifzf7xbil5iwcx4"))))))
 177
 178 (define-public python2-weave
 179   (package
 180     (name "python2-weave")
 181     (version "0.16.0")
 182     (source
 183      (origin
 184        (method url-fetch)
 185        (uri (pypi-uri "weave" version))
 186        (sha256
 187         (base32 "0jnm3584mfichgwgrd1gk5i42ll9c08nkw9716n947n4338f6ghs"))))
 188     (build-system python-build-system)
 189     (arguments
 190      `(#:python ,python-2
 191        #:phases
 192        (modify-phases %standard-phases
 193          (replace 'check
 194            (lambda _
 195              (invoke "nosetests" "-v"
 196                      "--exclude"
 197                      "test_(user|incorrect_ownership|char_fail|obj_fail)"))))))
 198     (propagated-inputs
 199      `(("python-numpy" ,python2-numpy)))
 200     (native-inputs
 201      `(("python-nose" ,python2-nose)))
 202     (home-page "https://www.scipy.org/")
 203     (synopsis "Tools for including C/C++ code within Python code")
 204     (description "Weave is the stand-alone version of the obsolete Scipy
 205 submodule @code{scipy.weave}.  It is Python 2.x only, and is provided for
 206 users that need new versions of Scipy but have existing code that still
 207 depends on @code{scipy.weave}.  For new code, users are recommended to use
 208 Cython.")
 209     (license license:bsd-3)))
 210
 211 (define-public python-scikit-fuzzy
 212   (package
 213     (name "python-scikit-fuzzy")
 214     (version "0.4.2")
 215     (source
 216      (origin
 217        (method url-fetch)
 218        (uri (pypi-uri "scikit-fuzzy" version))
 219        (sha256
 220         (base32 "0bp1n771fj44kdp7a00bcvfwirvv2rc803b7g6yf3va7v0j29c8s"))))
 221     (build-system python-build-system)
 222     (arguments
 223      `(#:phases
 224        (modify-phases %standard-phases
 225          (replace 'check
 226            (lambda _
 227              (invoke "nosetests" "-s" "-v" "skfuzzy")
 228              #t)))))
 229     (native-inputs
 230      `(("python-nose" ,python-nose)))
 231     (propagated-inputs
 232      `(("python-networkx" ,python-networkx)
 233        ("python-numpy" ,python-numpy)
 234        ("python-scipy" ,python-scipy)))
 235     (home-page "https://github.com/scikit-fuzzy/scikit-fuzzy")
 236     (synopsis "Fuzzy logic toolkit for SciPy")
 237     (description
 238      "This package implements many useful tools for projects involving fuzzy
 239 logic, also known as grey logic.")
 240     (license license:bsd-3)))
 241
 242 (define-public python-scikit-image
 243   (package
 244     (name "python-scikit-image")
 245     (version "0.18.1")
 246     (source
 247      (origin
 248        (method url-fetch)
 249        (uri (pypi-uri "scikit-image" version))
 250        (sha256
 251         (base32 "0wgisa03smhrphcjnhq7waa5vyyd32b67hblapjbqrqqj751idpv"))))
 252     (build-system python-build-system)
 253     (arguments
 254      `(#:phases
 255        (modify-phases %standard-phases
 256          (add-before 'build 'change-home-dir
 257            (lambda _
 258              ;; Change from /homeless-shelter to /tmp for write permission.
 259              (setenv "HOME" "/tmp")
 260              #t))
 261          (replace 'build
 262            (lambda _
 263              (invoke "make")))
 264          (replace 'check
 265            (lambda _
 266              ;; The following tests require online data.
 267              (invoke "python" "-m" "pytest" "skimage" "--doctest-modules" "-k"
 268                      (string-append "not test_ndim"
 269                                     " and not test_skin")))))))
 270     ;; See requirements/ for the list of build and run time requirements.
 271     ;; NOTE: scikit-image has an optional dependency on python-pooch, however
 272     ;; propagating it would enable many more tests that require online data.
 273     (propagated-inputs
 274      `(("python-cloudpickle" ,python-cloudpickle)
 275        ("python-dask" ,python-dask)
 276        ("python-imageio" ,python-imageio)
 277        ("python-matplotlib" ,python-matplotlib)
 278        ("python-networkx" ,python-networkx)
 279        ("python-numpy" ,python-numpy)
 280        ("python-pillow" ,python-pillow)
 281        ("python-pywavelets" ,python-pywavelets)
 282        ("python-scipy" ,python-scipy)
 283        ("python-tifffile" ,python-tifffile)))
 284     (native-inputs
 285      `(("python-codecov" ,python-codecov)
 286        ("python-cython" ,python-cython)
 287        ("python-flake8" ,python-flake8)
 288        ("python-pytest" ,python-pytest)
 289        ("python-pytest-cov" ,python-pytest-cov)
 290        ("python-pytest-localserver" ,python-pytest-localserver)
 291        ("python-wheel" ,python-wheel)))
 292     (home-page "https://scikit-image.org/")
 293     (synopsis "Image processing in Python")
 294     (description
 295      "Scikit-image is a collection of algorithms for image processing.")
 296     (license license:bsd-3)))
 297
 298 (define-public python-sgp4
 299   (package
 300     (name "python-sgp4")
 301     (version "2.12")
 302     (source
 303      (origin
 304        (method url-fetch)
 305        (uri (pypi-uri "sgp4" version))
 306        (sha256
 307         (base32 "0dncp9i5b6afkg7f8mj9j0qzsp008b8v73yc0qkmizhpns7mvwvx"))))
 308     (build-system python-build-system)
 309     (propagated-inputs
 310      `(("python-numpy" ,python-numpy)))
 311     (home-page "https://github.com/brandon-rhodes/python-sgp4")
 312     (synopsis "Track earth satellite TLE orbits using SGP4")
 313     (description
 314      "This package provides a Python implementation of the most recent version
 315 of the SGP4 satellite tracking algorithm.")
 316     (license license:expat)))
 317
 318 (define-public python-pandas
 319   (package
 320     (name "python-pandas")
 321     (version "1.0.5")
 322     (source
 323      (origin
 324        (method url-fetch)
 325        (uri (pypi-uri "pandas" version))
 326        (sha256
 327         (base32 "1a2gv3g6jr6vb5ca43fkwjl5xf86wpfz8y3zcy787adjl0hdkib9"))))
 328     (build-system python-build-system)
 329     (arguments
 330      `(#:modules ((guix build utils)
 331                   (guix build python-build-system)
 332                   (ice-9 ftw)
 333                   (srfi srfi-26))
 334        #:phases (modify-phases %standard-phases
 335                   (add-after 'unpack 'patch-which
 336                     (lambda* (#:key inputs #:allow-other-keys)
 337                       (let ((which (assoc-ref inputs "which")))
 338                         (substitute* "pandas/io/clipboard/__init__.py"
 339                           (("^WHICH_CMD = .*")
 340                            (string-append "WHICH_CMD = \"" which "\"\n"))))
 341                       #t))
 342                   (add-before 'check 'prepare-x
 343                     (lambda _
 344                       (system "Xvfb &")
 345                       (setenv "DISPLAY" ":0")
 346                       ;; xsel needs to write a log file.
 347                       (setenv "HOME" "/tmp")
 348                       #t))
 349                   (replace 'check
 350                     (lambda _
 351                       (let ((build-directory
 352                              (string-append
 353                               (getcwd) "/build/"
 354                               (car (scandir "build"
 355                                             (cut string-prefix? "lib." <>))))))
 356                         ;; Disable the "strict data files" option which causes
 357                         ;; the build to error out if required data files are
 358                         ;; not available (as is the case with PyPI archives).
 359                         (substitute* "setup.cfg"
 360                           (("addopts = --strict-data-files") "addopts = "))
 361                         (with-directory-excursion build-directory
 362                           (invoke "pytest" "-vv" "pandas" "--skip-slow"
 363                                   "--skip-network"))))))))
 364     (propagated-inputs
 365      `(("python-jinja2" ,python-jinja2)
 366        ("python-numpy" ,python-numpy)
 367        ("python-openpyxl" ,python-openpyxl)
 368        ("python-pytz" ,python-pytz)
 369        ("python-dateutil" ,python-dateutil)
 370        ("python-xlrd" ,python-xlrd)))
 371     (inputs
 372      `(("which" ,which)
 373        ("xclip" ,xclip)
 374        ("xsel" ,xsel)))
 375     (native-inputs
 376      `(("python-cython" ,python-cython)
 377        ("python-beautifulsoup4" ,python-beautifulsoup4)
 378        ("python-lxml" ,python-lxml)
 379        ("python-html5lib" ,python-html5lib)
 380        ("python-nose" ,python-nose)
 381        ("python-pytest" ,python-pytest)
 382        ("python-pytest-mock" ,python-pytest-mock)
 383        ;; Needed to test clipboard support.
 384        ("xorg-server" ,xorg-server-for-tests)))
 385     (home-page "https://pandas.pydata.org")
 386     (synopsis "Data structures for data analysis, time series, and statistics")
 387     (description
 388      "Pandas is a Python package providing fast, flexible, and expressive data
 389 structures designed to make working with structured (tabular,
 390 multidimensional, potentially heterogeneous) and time series data both easy
 391 and intuitive.  It aims to be the fundamental high-level building block for
 392 doing practical, real world data analysis in Python.")
 393     (properties `((python2-variant . ,(delay python2-pandas))))
 394     (license license:bsd-3)))
 395
 396 (define-public python-pandas-0.25
 397   (package
 398     (inherit python-pandas)
 399     (version "0.25.3")
 400     (source (origin
 401               (method url-fetch)
 402               (uri (pypi-uri "pandas" version))
 403               (sha256
 404                (base32
 405                 "191048m6kdc6yfvqs9w412lq60cfvigrsb57y0x116lwibgp9njj"))))
 406     (arguments
 407      (substitute-keyword-arguments (package-arguments python-pandas)
 408        ((#:phases phases)
 409         `(modify-phases ,phases
 410            (replace 'patch-which
 411              (lambda* (#:key inputs #:allow-other-keys)
 412                (let ((which (assoc-ref inputs "which")))
 413                  (substitute* "pandas/io/clipboard/__init__.py"
 414                    (("^CHECK_CMD = .*")
 415                      (string-append "CHECK_CMD = \"" which "\"\n"))))
 416                #t))
 417            (delete 'prepare-x)))))))
 418
 419 ;; Pandas 0.24.x are the last versions that support Python 2.
 420 (define-public python2-pandas
 421   (let ((pandas (package-with-python2
 422                  (strip-python2-variant python-pandas-0.25))))
 423     (package
 424       (inherit pandas)
 425       (version "0.24.2")
 426       (source (origin
 427                 (method url-fetch)
 428                 (uri (pypi-uri "pandas" version))
 429                 (sha256
 430                  (base32
 431                   "18imlm8xbhcbwy4wa957a1fkamrcb0z988z006jpfda3ki09z4ag"))
 432                 (modules '((guix build utils)))
 433                 (snippet
 434                  '(begin
 435                     ;; Adjust for renamed error message in Python 2.7.17.  Taken
 436                     ;; from <https://github.com/pandas-dev/pandas/pull/29294>.
 437                     (substitute* "pandas/io/parsers.py"
 438                       (("if 'NULL byte' in msg:")
 439                        "if 'NULL byte' in msg or 'line contains NUL' in msg:"))
 440                     #t)))))))
 441
 442 (define-public python-bottleneck
 443   (package
 444     (name "python-bottleneck")
 445     (version "1.3.2")
 446     (source
 447      (origin
 448        (method url-fetch)
 449        (uri (pypi-uri "Bottleneck" version))
 450        (sha256
 451         (base32 "0wz5320jx3n4q2nsvwvc7cpi66b46qbals9v53m955rmcq5ry5r0"))))
 452     (build-system python-build-system)
 453     (arguments
 454      `(#:phases
 455        (modify-phases %standard-phases
 456          (replace 'check
 457            (lambda _
 458              (invoke "python" "setup.py" "pytest"))))))
 459     (native-inputs
 460      `(("python-hypothesis" ,python-hypothesis)
 461        ("python-pytest" ,python-pytest)
 462        ("python-pytest-runner" ,python-pytest-runner)))
 463     (propagated-inputs
 464      `(("python-numpy" ,python-numpy)))
 465     (home-page "https://github.com/pydata/bottleneck")
 466     (synopsis "Fast NumPy array functions written in C")
 467     (description
 468      "Bottleneck is a collection of fast, NaN-aware NumPy array functions
 469 written in C.")
 470     (license license:bsd-2)))
 471
 472 (define-public python-baycomp
 473   (package
 474     (name "python-baycomp")
 475     (version "1.0.2")
 476     (source
 477      (origin
 478        (method url-fetch)
 479        (uri (pypi-uri "baycomp" version))
 480        (sha256
 481         (base32 "1c1354a7b3g8slychjgyjxqdm8z40z9kviyl9n4g9kfpdg0p4d64"))))
 482     (build-system python-build-system)
 483     (propagated-inputs
 484      `(("python-matplotlib" ,python-matplotlib)
 485        ("python-numpy" ,python-numpy)
 486        ("python-scipy" ,python-scipy)))
 487     (home-page "https://github.com/janezd/baycomp")
 488     (synopsis "Library for comparison of Bayesian classifiers")
 489     (description
 490      "Baycomp is a library for Bayesian comparison of classifiers.  Functions
 491 in the library compare two classifiers on one or on multiple data sets.  They
 492 compute three probabilities: the probability that the first classifier has
 493 higher scores than the second, the probability that differences are within the
 494 region of practical equivalence (rope), or that the second classifier has
 495 higher scores.")
 496     (license license:expat)))
 497
 498 (define-public python-xarray
 499   (package
 500     (name "python-xarray")
 501     (version "0.15.1")
 502     (source (origin
 503               (method url-fetch)
 504               (uri (pypi-uri "xarray" version))
 505               (sha256
 506                (base32
 507                 "1yx8j66b7rn10m2l6gmn8yr9cn38pi5cj0x0wwpy4hdnhy6i7qv4"))))
 508     (build-system python-build-system)
 509     (native-inputs
 510      `(("python-setuptools-scm" ,python-setuptools-scm)
 511        ("python-pytest" ,python-pytest)))
 512     (propagated-inputs
 513      `(("python-numpy" ,python-numpy)
 514        ("python-pandas" ,python-pandas)))
 515     (arguments
 516      `(#:phases
 517        (modify-phases %standard-phases
 518          (replace 'check
 519            (lambda _
 520              (invoke "pytest"))))))
 521     (home-page "https://github.com/pydata/xarray")
 522     (synopsis "N-D labeled arrays and datasets")
 523     (description "Xarray (formerly xray) makes working with labelled
 524 multi-dimensional arrays simple, efficient, and fun!
 525
 526 Xarray introduces labels in the form of dimensions, coordinates and attributes
 527 on top of raw NumPy-like arrays, which allows for a more intuitive, more
 528 concise, and less error-prone developer experience.  The package includes a
 529 large and growing library of domain-agnostic functions for advanced analytics
 530 and visualization with these data structures.")
 531     (license license:asl2.0)))
 532
 533 (define-public python-msgpack-numpy
 534   (package
 535     (name "python-msgpack-numpy")
 536     (version "0.4.6.post0")
 537     (source
 538      (origin
 539        (method url-fetch)
 540        (uri (pypi-uri "msgpack-numpy" version))
 541        (sha256
 542         (base32
 543          "0syzy645mwcy7lfjwz6pc8f9p2vv1qk4limc8iina3l5nnf0rjyz"))))
 544     (build-system python-build-system)
 545     (propagated-inputs
 546      `(("python-msgpack" ,python-msgpack)
 547        ("python-numpy" ,python-numpy)))
 548     (home-page "https://github.com/lebedov/msgpack-numpy")
 549     (synopsis
 550      "Numpy data serialization using msgpack")
 551     (description
 552      "This package provides encoding and decoding routines that enable the
 553 serialization and deserialization of numerical and array data types provided
 554 by numpy using the highly efficient @code{msgpack} format.  Serialization of
 555 Python's native complex data types is also supported.")
 556     (license license:bsd-3)))
 557
 558 (define-public python-statannot
 559   (package
 560     (name "python-statannot")
 561     (version "0.2.3")
 562     (source
 563      (origin
 564        (method url-fetch)
 565        (uri (pypi-uri "statannot" version))
 566        (sha256
 567         (base32
 568          "1f8c2sylzr7lpjbyqxsqlp9xi8rj3d8c9hfh98x4jbb83zxc4026"))))
 569     (build-system python-build-system)
 570     (propagated-inputs
 571      `(("python-numpy" ,python-numpy)
 572        ("python-seaborn" ,python-seaborn)
 573        ("python-matplotlib" ,python-matplotlib)
 574        ("python-pandas" ,python-pandas)
 575        ("python-scipy" ,python-scipy)))
 576     (home-page
 577      "https://github.com/webermarcolivier/statannot")
 578     (synopsis "Add annotations to existing plots generated by seaborn")
 579     (description
 580      "This is a Python package to compute statistical test and add statistical
 581 annotations on an existing boxplots and barplots generated by seaborn.")
 582     (license license:expat)))
 583
 584 (define-public python-upsetplot
 585   (package
 586     (name "python-upsetplot")
 587     (version "0.4.1")
 588     (source
 589      (origin
 590        (method url-fetch)
 591        (uri (pypi-uri "UpSetPlot" version))
 592        (sha256
 593         (base32
 594          "0kwljcmsvrxm33y3ssham2bwv4a5m31mv96y9h18va0cv7s3mqn1"))))
 595     (build-system python-build-system)
 596     (arguments
 597      `(#:phases
 598        (modify-phases %standard-phases
 599          (add-after 'unpack 'fix-versioning
 600            (lambda _
 601              (substitute* "setup.py"
 602                (("pytest-cov<2.6") "pytest-cov"))))
 603          (replace 'check
 604            (lambda* (#:key inputs outputs #:allow-other-keys)
 605              (add-installed-pythonpath inputs outputs)
 606              (invoke "pytest" "-v" "--doctest-modules"))))))
 607     (propagated-inputs
 608      `(("python-matplotlib" ,python-matplotlib)
 609        ("python-pandas" ,python-pandas)))
 610     (native-inputs
 611      `(("python-pytest-runner" ,python-pytest-runner)
 612        ("python-pytest-cov" ,python-pytest-cov)))
 613     (home-page "https://upsetplot.readthedocs.io")
 614     (synopsis "Draw UpSet plots with Pandas and Matplotlib")
 615     (description
 616      "This is a Python implementation of UpSet plots by Lex et al.
 617 UpSet plots are used to visualize set overlaps; like Venn diagrams but more
 618 readable.")
 619     (license license:bsd-3)))