GNU bug report logs - #36797
[PATCH 08/11] gnu: Add r-flowpeaks.

Previous Next

Full log

View this message in rfc822 format

From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: zimoun <zimon.toutoune <at> gmail.com>
Cc: tracker <at> debbugs.gnu.org
Subject: bug#36793: closed ([PATCH 04/11] gnu: Add r-flowcore.)
Date: Fri, 21 Feb 2020 17:08:03 +0000

[Message part 1 (text/plain, inline)]

Your message dated Fri, 21 Feb 2020 18:07:33 +0100
with message-id <CAJ3okZ2GnkOKAPNwz8FwmRbZ+W+pYHiwB=xD4qocRuuwEgtM4w <at> mail.gmail.com>
and subject line patches merged
has caused the debbugs.gnu.org bug report #36797,
regarding [PATCH 04/11] gnu: Add r-flowcore.
to be marked as done.

(If you believe you have received this mail in error, please contact
help-debbugs <at> gnu.org.)


-- 
36797: http://debbugs.gnu.org/cgi/bugreport.cgi?bug=36797
GNU Bug Tracking System
Contact help-debbugs <at> gnu.org with problems

[Message part 2 (message/rfc822, inline)]

From: zimoun <zimon.toutoune <at> gmail.com>
To: guix-patches <at> gnu.org
Cc: zimoun <zimon.toutoune <at> gmail.com>
Subject: [PATCH 04/11] gnu: Add r-flowcore.
Date: Wed, 24 Jul 2019 20:21:57 +0200

* gnu/packages/bioconductor.scm (r-flowcore): New variable.
---
 gnu/packages/bioconductor.scm | 30 ++++++++++++++++++++++++++++++
 1 file changed, 30 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 18b5711496..3a38042537 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4799,3 +4799,33 @@ read mapping, read counting, SNP calling, structural variant detection and
 gene fusion discovery.  It can be applied to all major sequencing techologies
 and to both short and long sequence reads.")
     (license license:gpl3)))
+
+(define-public r-flowcore
+  (package
+    (name "r-flowcore")
+    (version "1.50.0")
+    (source
+      (origin
+        (method url-fetch)
+        (uri (bioconductor-uri "flowCore" version))
+        (sha256
+          (base32
+            "0pvcyzycsmgc8iw60q9xnhllfan6ihwpz3gvk8h1n9jmhpxzylan"))))
+    (properties `((upstream-name . "flowCore")))
+    (build-system r-build-system)
+    (propagated-inputs
+      `(("r-bh" ,r-bh)
+        ("r-biobase" ,r-biobase)
+        ("r-biocgenerics" ,r-biocgenerics)
+        ("r-corpcor" ,r-corpcor)
+        ("r-graph" ,r-graph)
+        ("r-mass" ,r-mass)
+        ("r-matrixstats" ,r-matrixstats)
+        ("r-rcpp" ,r-rcpp)
+        ("r-rrcov" ,r-rrcov)))
+    (home-page
+      "https://bioconductor.org/packages/flowCore")
+    (synopsis "Basic structures for flow cytometry data")
+    (description
+      "Provides S4 data structures and basic functions to deal with flow cytometry data.")
+    (license license:artistic2.0)))
-- 
2.21.0

[Message part 3 (message/rfc822, inline)]

From: zimoun <zimon.toutoune <at> gmail.com>
To: 36797-done <at> debbugs.gnu.org
Subject: patches merged
Date: Fri, 21 Feb 2020 18:07:33 +0100

Dear,

All the patches are merged now; except r-flowpeaks. Because this
package use Artistic1.0 which is not enough clear to be considered
"free" [1,2] (GNU's point of view [3]) and upstream are not
responsive, let clean the bug tracker. :-)

[1] https://debbugs.gnu.org/cgi/bugreport.cgi?bug=36797#16
[2] https://lists.gnu.org/archive/html/guix-devel/2019-12/msg00286.html
[3] https://www.gnu.org/licenses/license-list.en.html#ArtisticLicense

All the best,
simon

Previous Next

GNU bug tracking system
Copyright (C) 1999 Darren O. Benham, 1997,2003 nCipher Corporation Ltd, 1994-97 Ian Jackson.