GNU bug report logs - #65499
[PATCH 1/2] gnu: Add r-bumpymatrix.

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Package: guix-patches;

Reported by: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>

Date: Thu, 24 Aug 2023 13:29:02 UTC

Severity: normal

Tags: patch

Done: Ricardo Wurmus <rekado <at> elephly.net>

Bug is archived. No further changes may be made.

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Report forwarded to guix-patches <at> gnu.org:
bug#65499; Package guix-patches. (Thu, 24 Aug 2023 13:29:02 GMT) Full text and rfc822 format available.

Acknowledgement sent to Navid Afkhami <navid.afkhami <at> mdc-berlin.de>:
New bug report received and forwarded. Copy sent to guix-patches <at> gnu.org. (Thu, 24 Aug 2023 13:29:02 GMT) Full text and rfc822 format available.

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

From: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Cc: Navid Afkhami <navid.afkhami <at> mdc-berlin.de>
Subject: [PATCH 1/2] gnu: Add r-bumpymatrix.
Date: Thu, 24 Aug 2023 13:28:27 +0000
* gnu/packages/bioconductor.scm (r-bumpymatrix): New variable.
---
 gnu/packages/bioconductor.scm | 27 +++++++++++++++++++++++++++
 1 file changed, 27 insertions(+)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 74071900a3..6204173277 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -12913,6 +12913,33 @@ (define-public r-siggenes
 Bayes Analyses of Microarrays} (EBAM).")
     (license license:lgpl2.0+)))
 
+(define-public r-bumpymatrix
+  (package
+    (name "r-bumpymatrix")
+    (version "1.8.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "BumpyMatrix" version))
+              (sha256
+               (base32
+                "021xn5d08phmwv6g8a5d4ap5kcf5syhm6vpr784l4k54lflssr5i"))))
+    (properties `((upstream-name . "BumpyMatrix")))
+    (build-system r-build-system)
+    (propagated-inputs (list r-iranges r-matrix r-s4vectors))
+    (native-inputs (list r-knitr))
+    (home-page "https://bioconductor.org/packages/BumpyMatrix")
+    (synopsis "Bumpy matrix of non-scalar objects")
+    (description
+     "
+@code{BumpyMatrix} class and subclasses for storing non-scalar objects in matrix entries.
+This is akin to a ragged array but the raggedness is in the third dimension,
+much like a bumpy surface - hence the name.  Of particular interest is the
+@code{BumpyDataFrameMatrix,} where each entry is a Bioconductor data frame.
+This allows us to naturally represent multivariate data in a format that is
+compatible with two-dimensional containers like the @code{SummarizedExperiment}
+and @code{MultiAssayExperiment} objects.")
+    (license license:expat)))
+
 (define-public r-bumphunter
   (package
     (name "r-bumphunter")

base-commit: 39fa1ef033fda82cb1d122e0d1675b51acb1db34
-- 
2.34.1





Reply sent to Ricardo Wurmus <rekado <at> elephly.net>:
You have taken responsibility. (Mon, 28 Aug 2023 08:22:02 GMT) Full text and rfc822 format available.

Notification sent to Navid Afkhami <navid.afkhami <at> mdc-berlin.de>:
bug acknowledged by developer. (Mon, 28 Aug 2023 08:22:02 GMT) Full text and rfc822 format available.

Message #10 received at 65499-done <at> debbugs.gnu.org (full text, mbox):

From: Ricardo Wurmus <rekado <at> elephly.net>
To: 65499-done <at> debbugs.gnu.org
Subject: [PATCH 1/2] gnu: Add r-bumpymatrix.
Date: Mon, 28 Aug 2023 10:20:22 +0200
Applied with minor changes.  Thanks!

-- 
Ricardo




bug archived. Request was from Debbugs Internal Request <help-debbugs <at> gnu.org> to internal_control <at> debbugs.gnu.org. (Mon, 25 Sep 2023 11:24:18 GMT) Full text and rfc822 format available.

This bug report was last modified 1 year and 267 days ago.

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