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authorMark H Weaver <mhw@netris.org>2018-05-17 01:00:50 -0400
committerMark H Weaver <mhw@netris.org>2018-05-17 01:00:50 -0400
commit539bf8f2c071b53834829259bb3fabf0390c5dc6 (patch)
tree16672732afbf4c3f933e67ac677aa1877f6a7657 /gnu/packages/statistics.scm
parent903874328ed5e5ab766e36cee1b1a0989e8b24a9 (diff)
parent2cf8531f360ef390d3ec670cc150b106bab5eff1 (diff)
downloadguix-539bf8f2c071b53834829259bb3fabf0390c5dc6.tar
guix-539bf8f2c071b53834829259bb3fabf0390c5dc6.tar.gz
Merge branch 'master' into core-updates
Diffstat (limited to 'gnu/packages/statistics.scm')
-rw-r--r--gnu/packages/statistics.scm46
1 files changed, 25 insertions, 21 deletions
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index aca26edad4..0762037ee3 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -639,14 +639,14 @@ curves, Cox models, and parametric accelerated failure time models.")
(define-public r-bit
(package
(name "r-bit")
- (version "1.1-12")
+ (version "1.1-13")
(source
(origin
(method url-fetch)
(uri (cran-uri "bit" version))
(sha256
(base32
- "0a6ig6nnjzq80r2ll4hc74za3xwzbzig6wlyb4dby0knzf3iqa6f"))))
+ "1yhpwvfkxpb773h8khjzyamqxl2jn7pjjmxjfawq626hhds8fsh6"))))
(build-system r-build-system)
(home-page "http://ff.r-forge.r-project.org")
(synopsis "Class for vectors of 1-bit booleans")
@@ -965,13 +965,13 @@ transliteration, concatenation, date-time formatting and parsing, etc.")
(define-public r-stringr
(package
(name "r-stringr")
- (version "1.3.0")
+ (version "1.3.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "stringr" version))
(sha256
- (base32 "07dvfbkhv8gk6l32j43jvxpmqlhqp0mdby406h5a3bsc6k94ic13"))))
+ (base32 "0hq3ybz7clnifi5wdm2s6p2i0kzljdkv26blg6yphng472h8x2vs"))))
(build-system r-build-system)
(propagated-inputs
`(("r-glue" ,r-glue)
@@ -1824,14 +1824,15 @@ building design matrices.")
(uri (pypi-uri "statsmodels" version))
(sha256
(base32
- "0j30v3932shnj9368c9jr3svkyrvfj90h2l7nxnqkbpv0svilhr6"))
- (patches (search-patches "python-statsmodels-fix-tests.patch"))))
+ "0j30v3932shnj9368c9jr3svkyrvfj90h2l7nxnqkbpv0svilhr6"))))
(build-system python-build-system)
(arguments
- `(#:phases
+ `(;; The test suite is very large and rather brittle. Tests often fail
+ ;; because of minor changes in dependencies that upstream hasn't fixed
+ ;; in a new release.
+ #:tests? #f
+ #:phases
(modify-phases %standard-phases
- ;; tests must be run after installation
- (delete 'check)
(add-after 'unpack 'set-matplotlib-backend-to-agg
(lambda _
;; Set the matplotlib backend to Agg to avoid problems using the
@@ -1843,14 +1844,17 @@ building design matrices.")
(string-append "import matplotlib;matplotlib.use('Agg');"
line)))
#t))
- (add-after 'install 'check
- (lambda* (#:key inputs outputs #:allow-other-keys)
- ;; Make installed package available for running the tests
- (add-installed-pythonpath inputs outputs)
- (with-directory-excursion "/tmp"
- (zero? (system* "nosetests"
- "--stop"
- "-v" "statsmodels"))))))))
+ ;; FIXME: This is a bug in version 0.8 since the upgrade to scipy 1.0.
+ ;; See https://github.com/statsmodels/statsmodels/issues/3931
+ ;; This has been fixed in version 0.9.
+ (add-after 'unpack 'patch-for-scipy
+ (lambda _
+ (substitute* "statsmodels/discrete/discrete_model.py"
+ (("return stats.chisqprob" match)
+ (string-append
+ "stats.chisqprob = lambda chisq, df: stats.chi2.sf(chisq, df);"
+ match)))
+ #t)))))
(propagated-inputs
`(("python-numpy" ,python-numpy)
("python-scipy" ,python-scipy)
@@ -2423,13 +2427,13 @@ disk (or a connection).")
(define-public r-plotrix
(package
(name "r-plotrix")
- (version "3.7")
+ (version "3.7-1")
(source (origin
(method url-fetch)
(uri (cran-uri "plotrix" version))
(sha256
(base32
- "0rw81n9p3d2i03b4pgcfj5blryc94f29bm9a4j9bnp5h8qjj6pry"))))
+ "16p6d2dna6dah7rg2xknhyy65jkfn0zzivx1nnfxhd4f5q0v87w2"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/plotrix")
(synopsis "Various plotting functions")
@@ -5195,14 +5199,14 @@ classification and regression models.")
(define-public r-rcppprogress
(package
(name "r-rcppprogress")
- (version "0.4")
+ (version "0.4.1")
(source
(origin
(method url-fetch)
(uri (cran-uri "RcppProgress" version))
(sha256
(base32
- "09ayw6d69i0lplmaj5md25p5hn1nmiyp6a4sh60v93nrrs1cq7iv"))))
+ "0yk01hfv961zyp569682k9igvhnwqyg5j0n5fm63sxigj82l2xhi"))))
(properties `((upstream-name . "RcppProgress")))
(build-system r-build-system)
(propagated-inputs