summaryrefslogtreecommitdiff
path: root/gnu/packages/python-xyz.scm
diff options
context:
space:
mode:
authorRicardo Wurmus <rekado@elephly.net>2019-12-02 14:04:39 +0100
committerRicardo Wurmus <rekado@elephly.net>2019-12-02 15:25:17 +0100
commitec1224a73b2c0c0c15a3293261334f3927f6579d (patch)
tree39fcc20fc70fa0a58b9e68a69f97f8122f1e638f /gnu/packages/python-xyz.scm
parentca7c365312d3af6f664868690f02c385f07e34a1 (diff)
gnu: python-scipy: Move to (gnu packages python-science).
* gnu/packages/python-xyz.scm (python-scipy, python2-scipy): Move these from here... * gnu/packages/python-science.scm (python-scipy, python2-scipy): ...to here. * gnu/packages/bioinformatics.scm, gnu/packages/machine-learning.scm, gnu/packages/statistics.scm: Adjust module imports.
Diffstat (limited to 'gnu/packages/python-xyz.scm')
-rw-r--r--gnu/packages/python-xyz.scm119
1 files changed, 0 insertions, 119 deletions
diff --git a/gnu/packages/python-xyz.scm b/gnu/packages/python-xyz.scm
index 1d6f0a8367..f52d9a410f 100644
--- a/gnu/packages/python-xyz.scm
+++ b/gnu/packages/python-xyz.scm
@@ -4277,125 +4277,6 @@ those files. It can also efficiently manipulate ranges of integers using set
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")