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gnu: python-rpy2: Update to 3.0.4-1.19868a8.

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* gnu/packages/statistics.scm (python-rpy2): Update to 3.0.4-1.19868a8.
[source]: Fetch from repository.
[propagated-inputs]: Add python-cffi, python-numpy, python-pandas,
python-ipython, and python-tzlocal.
[native-inputs]: Add python-pytest.
[arguments]: Set TZ variable and use pytest to run the tests.
This commit is contained in:
Ricardo Wurmus 2019-07-13 23:48:31 +02:00
parent 06e1ecbf17
commit 29fe71152f
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GPG key ID: 197A5888235FACAC
1 changed files with 68 additions and 53 deletions
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gnu/packages/statistics.scm
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@ -57,6 +57,7 @@ (define-module (gnu packages statistics)
#:use-module (gnu packages icu4c) #:use-module (gnu packages icu4c)
#:use-module (gnu packages image) #:use-module (gnu packages image)
#:use-module (gnu packages java) #:use-module (gnu packages java)
#:use-module (gnu packages libffi)
#:use-module (gnu packages machine-learning) #:use-module (gnu packages machine-learning)
#:use-module (gnu packages maths) #:use-module (gnu packages maths)
#:use-module (gnu packages multiprecision) #:use-module (gnu packages multiprecision)
@ -5765,62 +5766,76 @@ (define-public r-txtplot
(license license:lgpl3+))) (license license:lgpl3+)))
(define-public python-rpy2 (define-public python-rpy2
(package ;; We need to take this changeset instead of the RELEASE_3_0_4 tag, because
(name "python-rpy2") ;; it fixes a regression when using ggplot 3.2.0.
(version "2.9.4") (let ((changeset "19868a8")
(source (revision "1"))
(origin (package
(method url-fetch) (name "python-rpy2")
(uri (pypi-uri "rpy2" version)) (version (git-version "3.0.4" revision changeset))
(sha256 (source
(base32 (origin
"0bl1d2qhavmlrvalir9hmkjh74w21vzkvc2sg3cbb162s10zfmxy")))) (method hg-fetch)
(build-system python-build-system) (uri (hg-reference
(arguments (url "https://bitbucket.org/rpy2/rpy2")
'(#:modules ((ice-9 ftw) (changeset changeset)))
(srfi srfi-1) (file-name (git-file-name name version))
(srfi srfi-26) (sha256
(guix build utils) (base32
(guix build python-build-system)) "1bb0wslcbj3wjvyk3jb9yyzdi6adfqh5vfgcvn22dyzxzbhcs8kk"))))
#:phases (build-system python-build-system)
(modify-phases %standard-phases (arguments
(replace 'check '(#:modules ((ice-9 ftw)
(lambda* (#:key outputs inputs #:allow-other-keys) (srfi srfi-1)
(let ((cwd (getcwd))) (srfi srfi-26)
(setenv "PYTHONPATH" (guix build utils)
(string-append cwd "/build/" (guix build python-build-system))
(find (cut string-prefix? "lib" <>) #:phases
(scandir (string-append cwd "/build"))) (modify-phases %standard-phases
":" (replace 'check
(getenv "PYTHONPATH")))) (lambda* (#:key outputs inputs #:allow-other-keys)
(invoke "python" "-m" "rpy2.tests" "-v")))))) (let ((cwd (getcwd)))
(propagated-inputs (setenv "TZ" "UTC")
`(("python-six" ,python-six) (setenv "PYTHONPATH"
("python-jinja2" ,python-jinja2) (string-append cwd "/build/"
("python-pytz" ,python-pytz))) (find (cut string-prefix? "lib" <>)
(inputs (scandir (string-append cwd "/build")))
`(("readline" ,readline) ":"
("icu4c" ,icu4c) (getenv "PYTHONPATH"))))
("pcre" ,pcre) (invoke "pytest" "-v" "rpy/tests/"))))))
("r-minimal" ,r-minimal) (propagated-inputs
("r-survival" ,r-survival) `(("python-cffi" ,python-cffi)
("r-ggplot2" ,r-ggplot2) ("python-six" ,python-six)
("r-rsqlite" ,r-rsqlite) ("python-jinja2" ,python-jinja2)
("r-dplyr" ,r-dplyr) ("python-numpy" ,python-numpy)
("r-dbplyr" ,r-dbplyr) ("python-pandas" ,python-pandas)
("python-numpy" ,python-numpy))) ("python-pytz" ,python-pytz)
(native-inputs ("python-ipython" ,python-ipython)
`(("zlib" ,zlib))) ("python-tzlocal" ,python-tzlocal)))
(home-page "https://rpy2.bitbucket.io/") (inputs
(synopsis "Python interface to the R language") `(("readline" ,readline)
(description "rpy2 is a redesign and rewrite of rpy. It is providing a ("icu4c" ,icu4c)
("pcre" ,pcre)
("r-minimal" ,r-minimal)
("r-survival" ,r-survival)
("r-ggplot2" ,r-ggplot2)
("r-rsqlite" ,r-rsqlite)
("r-dplyr" ,r-dplyr)
("r-dbplyr" ,r-dbplyr)
("python-numpy" ,python-numpy)))
(native-inputs
`(("zlib" ,zlib)
("python-pytest" ,python-pytest)))
(home-page "https://rpy2.bitbucket.io/")
(synopsis "Python interface to the R language")
(description "rpy2 is a redesign and rewrite of rpy. It is providing a
low-level interface to R from Python, a proposed high-level interface, low-level interface to R from Python, a proposed high-level interface,
including wrappers to graphical libraries, as well as R-like structures and including wrappers to graphical libraries, as well as R-like structures and
functions.") functions.")
;; Any of these licenses can be picked for the R interface. The whole ;; Any of these licenses can be picked for the R interface. The whole
;; project is released under GPLv2+ according to the license declaration ;; project is released under GPLv2+ according to the license declaration
;; in "setup.py". ;; in "setup.py".
(license (list license:mpl2.0 license:gpl2+ license:lgpl2.1+)))) (license (list license:mpl2.0 license:gpl2+ license:lgpl2.1+)))))
(define-public java-jdistlib (define-public java-jdistlib
(package (package