4 small R patches

4 small R patches

[Pjotr Prins]

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Hope UTF8 is correct this time.



[-- Attachment #2: 0001-gnu-r-ggplot2-Update-to-2.0.0.patch --]
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From 0ac514d718121648fb0b851ee2c613fc72a83c79 Mon Sep 17 00:00:00 2001
From: Pjotr Prins <pjotr.public01@thebird.nl>
Date: Mon, 29 Feb 2016 08:32:40 +0000
Subject: [PATCH 1/4] gnu: r-ggplot2: Update to 2.0.0

* gnu/packages/statistics.scm (r-ggplot2): Update to 2.0.0
---
 gnu/packages/statistics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm
index 08e8654..7e38693 100644
--- a/gnu/packages/statistics.scm
+++ b/gnu/packages/statistics.scm
@@ -465,13 +465,13 @@ legends.")
 (define-public r-ggplot2
   (package
     (name "r-ggplot2")
-    (version "1.0.1")
+    (version "2.0.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ggplot2" version))
        (sha256
-        (base32 "0794kjqi3lrxb33lr1mykd58959hlgkhdn259vj8fxrh65mqw920"))))
+        (base32 "07r5zw0ccv4sf1mdxcz9wa86p2c6j61cnnq18qdjrh3zhhcbmdp2"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-digest" ,r-digest)
-- 
2.6.3


[-- Attachment #3: 0002-gnu-r-s4vectors-Update-to-0.8.11.patch --]
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From 17068f2417acd4588ffa02182dc6bcc7be89b20e Mon Sep 17 00:00:00 2001
From: Pjotr Prins <pjotr.public01@thebird.nl>
Date: Mon, 29 Feb 2016 08:37:54 +0000
Subject: [PATCH 2/4] gnu: r-s4vectors: Update to 0.8.11

* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.8.11
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 7b3838d..9f92e9f 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3667,13 +3667,13 @@ packages.")
 (define-public r-s4vectors
   (package
     (name "r-s4vectors")
-    (version "0.8.5")
+    (version "0.8.11")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "S4Vectors" version))
               (sha256
                (base32
-                "10f4jxwlwsiy7zhb3kgp6anid0d7wkvrrljl80r3nhx38yr24l5k"))))
+                "12iibcs63m9iy7f45wgjcqsna2dnqwckphk682389grshz0g4x66"))))
     (properties
      `((upstream-name . "S4Vectors")
        (r-repository . bioconductor)))
-- 
2.6.3


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From 3bf38a2063a548877367f107ffbfd79c47c1a5bd Mon Sep 17 00:00:00 2001
From: Pjotr Prins <pjotr.public01@thebird.nl>
Date: Mon, 29 Feb 2016 08:40:38 +0000
Subject: [PATCH 3/4] gnu: r-iranges: Update to 2.4.8

* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.4.8
---
 gnu/packages/bioinformatics.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 9f92e9f..79c392b 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3695,13 +3695,13 @@ S4Vectors package itself.")
 (define-public r-iranges
   (package
     (name "r-iranges")
-    (version "2.4.6")
+    (version "2.4.8")
     (source (origin
               (method url-fetch)
               (uri (bioconductor-uri "IRanges" version))
               (sha256
                (base32
-                "00x0266sys1fc5ipa639y84p6m6mgspk2xb099vcwmd3w4hypj9d"))))
+                "0hi5k1j5jm4xrg1l506g279qw1xkvp1gg1zgsjzpbng4vx4k4iyl"))))
     (properties
      `((upstream-name . "IRanges")
        (r-repository . bioconductor)))
-- 
2.6.3


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From 2d150676aafc63bcd41b70c0ae8a544a5f2a03f9 Mon Sep 17 00:00:00 2001
From: Pjotr Prins <pjotr.public01@thebird.nl>
Date: Mon, 29 Feb 2016 08:46:58 +0000
Subject: [PATCH 4/4] gnu: r-go-db: Bioconductor changed URL for data downloads

* gnu/packages/bioinformatics.scm (r-go-db): Update data URL
---
 gnu/packages/bioinformatics.scm | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 79c392b..a4f8096 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -4141,7 +4141,7 @@ extracting the desired features in a convenient format.")
     (version "3.2.2")
     (source (origin
               (method url-fetch)
-              (uri (bioconductor-uri "GO.db" version))
+              (uri (string-append "http://www.bioconductor.org/packages/release/data/annotation/src/contrib/GO.db_" version ".tar.gz"))
               (sha256
                (base32
                 "00gariag9ampz82dh0xllrc26r85d7vdcwc0vca5zdy147rwxr7f"))))
-- 
2.6.3

Re: 4 small R patches

[Efraim Flashner]

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On Mon, 29 Feb 2016 12:44:08 +0100
Pjotr Prins <pjotr.public12@thebird.nl> wrote:

> Hope UTF8 is correct this time.
> 
> 

it showed up at utf7 in mutt for me, but it's been wrong before :)

Patches look good. I added a copyright line for you and pushed.

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