gnu: Add scipy.
* gnu/packages/python.scm (python-scipy, python2-scipy): New variables.master
Federico Beffa
parent
65a056900f
commit
bb986599e6
|
|
@ -2196,6 +2196,113 @@ toolkits.")
|
|||
,@(alist-delete "python-numpydoc"
|
||||
(package-inputs matplotlib)))))))
|
||||
|
||||
;; Scipy 0.14.0 with Numpy 0.19.X fails several tests. This is known and
|
||||
;; planned to be fixed in 0.14.1. It is claimed that the failures can safely
|
||||
;; be ignored:
|
||||
;; http://mail.scipy.org/pipermail/scipy-dev/2014-September/020043.html
|
||||
;; https://github.com/scipy/scipy/issues/3853
|
||||
;;
|
||||
;; The main test suite procedure prints the summary message:
|
||||
;;
|
||||
;; Ran 16412 tests in 245.033s
|
||||
;; FAILED (KNOWNFAIL=277, SKIP=921, errors=327, failures=42)
|
||||
;;
|
||||
;; However, it still does return normally.
|
||||
(define-public python-scipy
|
||||
(package
|
||||
(name "python-scipy")
|
||||
(version "0.14.0")
|
||||
(source
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri (string-append "mirror://sourceforge/scipy"
|
||||
"/scipy-" version ".tar.gz"))
|
||||
(sha256
|
||||
(base32
|
||||
"053bmz4qmnk4dmxvspfak8r10rpmy6mzwfzgy33z338ppzka6hab"))))
|
||||
(build-system python-build-system)
|
||||
(inputs
|
||||
`(("python-numpy" ,python-numpy)
|
||||
("python-matplotlib" ,python-matplotlib)
|
||||
("python-pyparsing" ,python-pyparsing)
|
||||
("python-nose" ,python-nose)
|
||||
("python-sphinx" ,python-sphinx)
|
||||
("atlas" ,atlas)))
|
||||
(native-inputs
|
||||
`(("gfortran" ,gfortran-4.8)
|
||||
("texlive" ,texlive)
|
||||
("perl" ,perl)))
|
||||
(outputs '("out" "doc"))
|
||||
(arguments
|
||||
`(#:phases
|
||||
(alist-cons-before
|
||||
'build 'set-environment-variables
|
||||
(lambda* (#:key inputs #:allow-other-keys)
|
||||
(let* ((atlas-threaded
|
||||
(string-append (assoc-ref inputs "atlas")
|
||||
"/lib/libtatlas.so"))
|
||||
;; On single core CPUs only the serial library is created.
|
||||
(atlas-lib
|
||||
(if (file-exists? atlas-threaded)
|
||||
atlas-threaded
|
||||
(string-append (assoc-ref inputs "atlas")
|
||||
"/lib/libsatlas.so"))))
|
||||
(setenv "ATLAS" atlas-lib)))
|
||||
(alist-cons-after
|
||||
'install 'install-doc
|
||||
(lambda* (#:key 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=")))
|
||||
(with-directory-excursion "doc"
|
||||
;; Without setting this variable we get an encoding error.
|
||||
(setenv "LANG" "en_US.UTF-8")
|
||||
;; Fix generation of images for mathematical expressions.
|
||||
(substitute* (find-files "source" "conf\\.py")
|
||||
(("pngmath_use_preview = True")
|
||||
"pngmath_use_preview = False"))
|
||||
(mkdir-p html)
|
||||
(system* "make" "html" pyver)
|
||||
(system* "make" "latex" "PAPER=a4" pyver)
|
||||
(system* "make" "-C" "build/latex" "all-pdf" "PAPER=a4" pyver)
|
||||
(copy-file "build/latex/scipy-ref.pdf"
|
||||
(string-append doc "/scipy-ref.pdf"))
|
||||
(with-directory-excursion "build/html"
|
||||
(for-each (lambda (file)
|
||||
(let* ((dir (dirname file))
|
||||
(tgt-dir (string-append html "/" dir)))
|
||||
(unless (equal? "." dir)
|
||||
(mkdir-p tgt-dir))
|
||||
(copy-file file (string-append html "/" file))))
|
||||
(find-files "." ".*"))))))
|
||||
;; Tests can only be run after the library has been installed and not
|
||||
;; within the source directory.
|
||||
(alist-cons-after
|
||||
'install 'check
|
||||
(lambda _
|
||||
(with-directory-excursion "/tmp"
|
||||
(zero? (system* "python" "-c" "import scipy; scipy.test()"))))
|
||||
(alist-delete
|
||||
'check
|
||||
%standard-phases))))))
|
||||
(home-page "http://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.")
|
||||
(license bsd-3)))
|
||||
|
||||
(define-public python2-scipy
|
||||
(let ((scipy (package-with-python2 python-scipy)))
|
||||
(package (inherit scipy)
|
||||
;; Use packages customized for python-2.
|
||||
(inputs `(("python2-matplotlib" ,python2-matplotlib)
|
||||
("python2-numpy" ,python2-numpy)
|
||||
,@(alist-delete "python-matplotlib"
|
||||
(alist-delete "python-numpy"
|
||||
(package-inputs scipy))))))))
|
||||
|
||||
(define-public python-sqlalchemy
|
||||
(package
|
||||
(name "python-sqlalchemy")
|
||||
|
|
@ -2341,3 +2448,4 @@ a general image processing tool.")
|
|||
|
||||
(define-public python2-pillow
|
||||
(package-with-python2 python-pillow))
|
||||
|
||||
|
|
|
|||
Reference in New Issue