Subject: bug#61250: closed ([PATCH 1/3] gnu: Add r-viper.)

From: [email-masked] (GNU bug Tracking System)
Date: Fri, 03 Feb 2023 15:50:02 +0000

Your bug report

#61250: [PATCH 1/3] gnu: Add r-viper.

which was filed against the guix-patches package, has been closed.

The explanation is attached below, along with your original report.
If you require more details, please reply to [email-masked].

-- 
61250: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=61250
GNU Bug Tracking System
Contact [email-masked] with problems

Subject: [PATCH 1/3] gnu: Add r-viper.
From: Ricardo Wurmus <[email-masked]>
To: [email-masked]
Date: Fri, 03 Feb 2023 16:47:28 +0100
List-Id: <debbugs-submit.debbugs.gnu.org>

Unfortunately, we cannot add this to Guix.   The license says:

  c. You agree that You will only use the Program and Documentation for
     non-commercial internal academic or educational research purposes
     only. You will not (i) reproduce or copy the Program (ii) use, or
     cause or permit the use of, the Program in whole or in part for any
     purpose other than as permitted under this License; (iii)
     distribute, sell, lease, license or otherwise make the Program
     available to a third party outside Your organization; or (iv)
     reverse engineer, decompile, or disassemble the Program.

I have instead added the package to guix-science-nonfree.

-- 
Ricardo

Subject: [PATCH 1/3] gnu: Add r-viper.
From: Navid Afkhami <[email-masked]>
To: <[email-masked]>
Date: Fri, 3 Feb 2023 13:18:52 +0100
List-Id: <debbugs-submit.debbugs.gnu.org>

* gnu/packages/bioconductor.scm (r-viper): New variable.
---
 gnu/packages/bioconductor.scm | 21 +++++++++++++++++++++
 1 file changed, 21 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 711b988e7f..aeef6f4106 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -8307,6 +8307,27 @@ (define-public r-variantannotation
 coding changes and predict coding outcomes.")
     (license license:artistic2.0)))
 
+(define-public r-viper
+  (package
+    (name "r-viper")
+    (version "1.32.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "viper" version))
+              (sha256
+               (base32
+                "11i2q9nakh534nx2l736id7k1yqhk7jpg32sbfl4vrnh398q86h6"))))
+    (properties `((upstream-name . "viper")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-biobase r-e1071 r-kernsmooth r-mixtools))
+    (home-page "https://bioconductor.org/packages/viper")
+    (synopsis
+     "Virtual inference of protein-activity by enriched regulon analysis")
+    (description
+     "Inference of protein activity from gene expression data.
+Including the VIPER and msVIPER algorithms")
+    (license license:gpl2+)))
+
 (define-public r-vsn
   (package
     (name "r-vsn")
-- 
2.34.1