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

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From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: Ricardo Wurmus <rekado <at> elephly.net>
Cc: tracker <at> debbugs.gnu.org
Subject: bug#58511: closed ([PATCH] gnu: Add r-tximportdata. X-Debbugs-Cc:
 rekado <at> elephly.net)
Date: Thu, 27 Oct 2022 13:25:01 +0000

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Your message dated Thu, 27 Oct 2022 15:24:10 +0200
with message-id <87bkpxielk.fsf <at> elephly.net>
and subject line [PATCH] gnu: Add r-tximportdata.
has caused the debbugs.gnu.org bug report #58511,
regarding [PATCH] gnu: Add r-tximportdata. X-Debbugs-Cc: rekado <at> elephly.net
to be marked as done.

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


-- 
58511: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=58511
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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

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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

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