GNU bug report logs - #58511
[PATCH] gnu: Add r-tximportdata. X-Debbugs-Cc: rekado@elephly.net

Previous Next

To add a comment to this bug, you must first unarchive it, by sending
a message to control AT debbugs.gnu.org, with unarchive 58511 in the body.
You can then email your comments to 58511 AT debbugs.gnu.org in the normal way.

Toggle the display of automated, internal messages from the tracker.

Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):

From: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Subject: [PATCH] gnu: Add r-tximportdata. X-Debbugs-Cc: rekado <at> elephly.net
Date: Fri, 14 Oct 2022 13:12:16 +0200

* gnu/packages/bioconductor.scm (r-tximportdata): New variable.
---
 gnu/packages/bioconductor.scm | 24 ++++++++++++++++++++++++
 1 file changed, 24 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index ecb60f2e24..bfb773672b 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1605,6 +1605,30 @@ (define-public r-tcgabiolinksgui-data
 TCGAbiolinksGUI package.")
     (license license:gpl3)))
 
+(define-public r-tximportdata
+  (package
+    (name "r-tximportdata")
+    (version "1.24.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "tximportData" version
+                                     'experiment))
+              (sha256
+               (base32
+                "0mgbwpybg2xd6x1ijrflmjh5w63qz6ylnzszbbyp437n618m7riy"))))
+    (properties `((upstream-name . "tximportData")))
+    (build-system r-build-system)
+    (native-inputs (list r-knitr))
+    (home-page "https://bioconductor.org/packages/tximportData")
+    (synopsis "Data for the tximport package")
+    (description
+     "This package provides the output of running various transcript abundance
+quantifiers on a set of 6 RNA-seq samples from the GEUVADIS project.  The
+quantifiers were @code{Cufflinks}, @code{RSEM}, @code{kallisto}, @code{Salmon}
+and @code{Sailfish}.  @code{alevin} example output is also included.")
+    (license license:gpl2+)))
+
+
 
 ;;; Packages
 

base-commit: 10d429f2fce321d8285684503094694ec3979865
-- 
2.37.3

Message #10 received at 58511-done <at> debbugs.gnu.org (full text, mbox):

From: Ricardo Wurmus <rekado <at> elephly.net>
To: 58511-done <at> debbugs.gnu.org
Subject: [PATCH] gnu: Add r-tximportdata.
Date: Thu, 27 Oct 2022 15:24:10 +0200

Applied with minor changes to the description.  Thanks!

-- 
Ricardo

Previous Next

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