gnu: python-rpy2: Update to 3.3.5.
* gnu/packages/statistics.scm (python-rpy2): Update to 3.3.5. [source]: Add patches to fix test failures. [arguments]: Adjust custom 'check phase.
This commit is contained in:
Efraim Flashner
parent
d0fc1e832c
commit
24cc25be89
@ -5683,76 +5683,87 @@ to any arbitrary string. In this case, it is up to you to set valid values.")
|
||||
(license license:gpl3+)))
|
||||
|
||||
(define-public python-rpy2
|
||||
;; We need to take this changeset instead of the RELEASE_3_0_4 tag, because
|
||||
;; it fixes a regression when using ggplot 3.2.0.
|
||||
(let ((changeset "19868a8")
|
||||
(revision "1"))
|
||||
(package
|
||||
(name "python-rpy2")
|
||||
(version (git-version "3.0.4" revision changeset))
|
||||
(source
|
||||
(origin
|
||||
(method hg-fetch)
|
||||
(uri (hg-reference
|
||||
(url "https://bitbucket.org/rpy2/rpy2")
|
||||
(changeset changeset)))
|
||||
(file-name (git-file-name name version))
|
||||
(sha256
|
||||
(base32
|
||||
"1bb0wslcbj3wjvyk3jb9yyzdi6adfqh5vfgcvn22dyzxzbhcs8kk"))))
|
||||
(build-system python-build-system)
|
||||
(arguments
|
||||
'(#:modules ((ice-9 ftw)
|
||||
(srfi srfi-1)
|
||||
(srfi srfi-26)
|
||||
(guix build utils)
|
||||
(guix build python-build-system))
|
||||
#:phases
|
||||
(modify-phases %standard-phases
|
||||
(replace 'check
|
||||
(lambda* (#:key outputs inputs #:allow-other-keys)
|
||||
(let ((cwd (getcwd)))
|
||||
(setenv "TZ" "UTC")
|
||||
(setenv "PYTHONPATH"
|
||||
(string-append cwd "/build/"
|
||||
(find (cut string-prefix? "lib" <>)
|
||||
(scandir (string-append cwd "/build")))
|
||||
":"
|
||||
(getenv "PYTHONPATH"))))
|
||||
(invoke "pytest" "-v" "rpy/tests/"))))))
|
||||
(propagated-inputs
|
||||
`(("python-cffi" ,python-cffi)
|
||||
("python-six" ,python-six)
|
||||
("python-jinja2" ,python-jinja2)
|
||||
("python-numpy" ,python-numpy)
|
||||
("python-pandas" ,python-pandas)
|
||||
("python-pytz" ,python-pytz)
|
||||
("python-ipython" ,python-ipython)
|
||||
("python-tzlocal" ,python-tzlocal)))
|
||||
(inputs
|
||||
`(("readline" ,readline)
|
||||
("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.github.io")
|
||||
(synopsis "Python interface to the R language")
|
||||
(description "rpy2 is a redesign and rewrite of rpy. It is providing a
|
||||
(package
|
||||
(name "python-rpy2")
|
||||
(version "3.3.5")
|
||||
(source
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri (pypi-uri "rpy2" version))
|
||||
(sha256
|
||||
(base32
|
||||
"1bs36rds5fq8821l5q85q2b25161rs9ppw5c26x0hjwj487gpcfj"))
|
||||
;; These patches should be removed with the next release.
|
||||
(patches
|
||||
(list
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri "https://github.com/rpy2/rpy2/commit/04c57598f00145d868ea8da31ac1b1e7c49f7570.patch")
|
||||
(file-name "python-rpy2-fix-test-failure.patch")
|
||||
(sha256
|
||||
(base32
|
||||
"1lqd3yxjfx1rxrybcmnapy0r6ambg9myrb98q4nlfhpxanwfdbbh")))
|
||||
(origin
|
||||
(method url-fetch)
|
||||
(uri "https://github.com/rpy2/rpy2/commit/685f67d0a6b47ea80e718116a10755019446aef7.patch")
|
||||
(file-name "python-rpy2-r-console-test-fix.patch")
|
||||
(sha256
|
||||
(base32
|
||||
"18wpvfaa4c13d44cb4sw88c3c7403xdy5m8h82wfq8fjmcq3cmzn")))))))
|
||||
(build-system python-build-system)
|
||||
(arguments
|
||||
'(#:modules ((ice-9 ftw)
|
||||
(srfi srfi-1)
|
||||
(srfi srfi-26)
|
||||
(guix build utils)
|
||||
(guix build python-build-system))
|
||||
#:phases
|
||||
(modify-phases %standard-phases
|
||||
(replace 'check
|
||||
(lambda* (#:key outputs inputs #:allow-other-keys)
|
||||
(let ((cwd (getcwd)))
|
||||
(setenv "TZ" "UTC")
|
||||
(setenv "PYTHONPATH"
|
||||
(string-append cwd "/build/"
|
||||
(find (cut string-prefix? "lib" <>)
|
||||
(scandir (string-append cwd "/build")))
|
||||
":"
|
||||
(getenv "PYTHONPATH"))))
|
||||
;; test_vector_complex has issues when run in our environment.
|
||||
(invoke "pytest" "-v" "rpy2/tests/" "-k" "not test_vector_complex"))))))
|
||||
(propagated-inputs
|
||||
`(("python-cffi" ,python-cffi)
|
||||
("python-six" ,python-six)
|
||||
("python-jinja2" ,python-jinja2)
|
||||
("python-numpy" ,python-numpy)
|
||||
("python-pandas" ,python-pandas)
|
||||
("python-pytz" ,python-pytz)
|
||||
("python-ipython" ,python-ipython)
|
||||
("python-tzlocal" ,python-tzlocal)))
|
||||
(inputs
|
||||
`(("readline" ,readline)
|
||||
("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.github.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,
|
||||
including wrappers to graphical libraries, as well as R-like structures and
|
||||
functions.")
|
||||
;; Any of these licenses can be picked for the R interface. The whole
|
||||
;; project is released under GPLv2+ according to the license declaration
|
||||
;; in "setup.py".
|
||||
(license (list license:mpl2.0 license:gpl2+ license:lgpl2.1+)))))
|
||||
;; Any of these licenses can be picked for the R interface. The whole
|
||||
;; project is released under GPLv2+ according to the license declaration
|
||||
;; in "setup.py".
|
||||
(license (list license:mpl2.0 license:gpl2+ license:lgpl2.1+))))
|
||||
|
||||
(define-public java-jdistlib
|
||||
(package
|
||||
|
||||
Loading…
Reference in New Issue
Block a user