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authorRicardo Wurmus <ricardo.wurmus@mdc-berlin.de>2018-09-12 19:04:02 +0200
committerRicardo Wurmus <rekado@elephly.net>2018-09-12 19:35:02 +0200
commit4a89bdd1965f9bf4a06590bb7fde806be3e784a6 (patch)
tree95f8c89e3c23ac0ba5128074ef37ea0bde46ae51
parentb002809f848d81dfc4640635d98d8bac3af62cee (diff)
downloadguix-4a89bdd1965f9bf4a06590bb7fde806be3e784a6.tar
guix-4a89bdd1965f9bf4a06590bb7fde806be3e784a6.tar.gz
gnu: python-scikit-learn: Update to 0.19.2.
* gnu/packages/machine-learning.scm (python-scikit-learn): Update to 0.19.2. [source]: Fetch from git. [arguments]: Run tests before installation; replace "check" phase, add "build-ext" phase; delete "reset-gzip-timestamps" phase. [native-inputs]: Add python-pytest and python-pandas; remove python-nose.
-rw-r--r--gnu/packages/machine-learning.scm49
1 files changed, 25 insertions, 24 deletions
diff --git a/gnu/packages/machine-learning.scm b/gnu/packages/machine-learning.scm
index 7790e78779..9aa61bd8f8 100644
--- a/gnu/packages/machine-learning.scm
+++ b/gnu/packages/machine-learning.scm
@@ -703,40 +703,41 @@ computing environments.")
(define-public python-scikit-learn
(package
(name "python-scikit-learn")
- (version "0.19.1")
+ (version "0.19.2")
(source
(origin
- (method url-fetch)
- (uri (string-append
- "https://github.com/scikit-learn/scikit-learn/archive/"
- version ".tar.gz"))
- (file-name (string-append name "-" version ".tar.gz"))
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/scikit-learn/scikit-learn.git")
+ (commit version)))
+ (file-name (git-file-name name version))
(sha256
(base32
- "18n8775kyfwbvcjjjzda9c5sqy4737c0hrmj6qj1ps2jmlqzair9"))
+ "1dk9hdj01c0bny4ps78b7869fjw9gr6qklxf6wyql8h6nh4k19xm"))
(patches (search-patches
- "python-scikit-learn-fix-test-non-determinism.patch"))))
+ "python-scikit-learn-fix-test-non-determinism.patch"))))
(build-system python-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
- (delete 'check)
- (add-after 'install 'check
- ;; Running tests from the source directory requires
- ;; an "inplace" build with paths relative to CWD.
- ;; http://scikit-learn.org/stable/developers/advanced_installation.html#testing
- ;; Use the installed version instead.
- (lambda* (#:key inputs outputs #:allow-other-keys)
- (add-installed-pythonpath inputs outputs)
- ;; some tests require access to "$HOME"
- (setenv "HOME" "/tmp")
- ;; Step out of the source directory just to be sure.
- (chdir "..")
- (invoke "nosetests" "-v" "sklearn"))))))
+ (add-after 'build 'build-ext
+ (lambda _ (invoke "python" "setup.py" "build_ext" "--inplace") #t))
+ (replace 'check
+ (lambda _
+ ;; Restrict OpenBLAS threads to prevent segfaults while testing!
+ (setenv "OPENBLAS_NUM_THREADS" "1")
+ ;; Disable tests that require network access
+ (delete-file "sklearn/datasets/tests/test_mldata.py")
+ (delete-file "sklearn/datasets/tests/test_rcv1.py")
+ (invoke "pytest" "sklearn")
+ #t))
+ ;; FIXME: This fails with permission denied
+ (delete 'reset-gzip-timestamps))))
(inputs
`(("openblas" ,openblas)))
(native-inputs
- `(("python-nose" ,python-nose)
+ `(("python-pytest" ,python-pytest)
+ ("python-pandas" ,python-pandas) ;for tests
("python-cython" ,python-cython)))
(propagated-inputs
`(("python-numpy" ,python-numpy)
@@ -744,8 +745,8 @@ computing environments.")
(home-page "http://scikit-learn.org/")
(synopsis "Machine Learning in Python")
(description
- "Scikit-learn provides simple and efficient tools for data
-mining and data analysis.")
+ "Scikit-learn provides simple and efficient tools for data mining and
+data analysis.")
(license license:bsd-3)))
(define-public python2-scikit-learn