From 4a6c6484df286203a2cb6ed5c431047febf499f2 Mon Sep 17 00:00:00 2001
From: Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
Date: Mon, 22 Aug 2022 13:26:27 +0200
Subject: gnu: Add r-organism-dplyr.

* gnu/packages/bioconductor.scm (r-organism-dplyr): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
---
 gnu/packages/bioconductor.scm | 39 +++++++++++++++++++++++++++++++++++++++
 1 file changed, 39 insertions(+)

(limited to 'gnu')

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 8842b0feb5..d27419428f 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -5062,6 +5062,45 @@ proteowizard library for mzML and mzIdentML.  The netCDF reading code has
 previously been used in XCMS.")
     (license license:artistic2.0)))
 
+(define-public r-organism-dplyr
+  (package
+    (name "r-organism-dplyr")
+    (version "1.24.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (bioconductor-uri "Organism.dplyr" version))
+       (sha256
+        (base32
+         "0j29f85d66c45ww3417xx376vpz0mmvga5n7h2cl1sd4h70b55as"))))
+    (properties `((upstream-name . "Organism.dplyr")))
+    (build-system r-build-system)
+    (propagated-inputs
+     (list r-annotationdbi
+           r-annotationfilter
+           r-biocfilecache
+           r-dbi
+           r-dbplyr
+           r-dplyr
+           r-genomeinfodb
+           r-genomicfeatures
+           r-genomicranges
+           r-iranges
+           r-rlang
+           r-rsqlite
+           r-s4vectors
+           r-tibble))
+    (native-inputs (list r-knitr))
+    (home-page "https://bioconductor.org/packages/Organism.dplyr")
+    (synopsis "Dplyr-based access to Bioconductor annotation resources")
+    (description
+     "This package provides an alternative interface to Bioconductor @code{
+annotation} resources, in particular the gene identifier mapping functionality
+of the @code{org} packages (e.g., @code{org.Hs.eg.db}) and the genome coordinate
+functionality of the @code{TxDb} packages (e.g.,
+@code{TxDb.Hsapiens.UCSC.hg38.knownGene}).")
+    (license license:artistic2.0)))
+
 (define-public r-organismdbi
   (package
     (name "r-organismdbi")
-- 
cgit v1.2.3

'/guix/log/gnu?id=232557c1592718455977ab35e946085eeaf6cced'>gnu</a>/<a href='/guix/log/gnu/services?id=232557c1592718455977ab35e946085eeaf6cced'>services</a>/<a href='/guix/log/gnu/services/audio.scm?id=232557c1592718455977ab35e946085eeaf6cced'>audio.scm</a></div><div class='content'><table class='list nowrap'><tr class='nohover'><th class='left'>Age</th><th class='left'>Commit message (<a href='/guix/log/gnu/services/audio.scm?id=232557c1592718455977ab35e946085eeaf6cced&amp;showmsg=1'>Expand</a>)</th><th class='left'>Author</th></tr>
<tr><td><span title='2017-11-05 15:29:52 +0100'>2017-11-05</span></td><td><a href='/guix/commit/gnu/services/audio.scm?id=21b71b01e9c2264c31ef30451c152bb38cc9e635'>services: Add 'description' fields.</a><span class='msg-avail'>...<span class='msg-tooltip'>* gnu/services/admin.scm (rottlog-service-type)
(tailon-service-type): Add 'description' field.
* gnu/services/audio.scm (mpd-service-type): Likewise.
* gnu/services/avahi.scm (avahi-service-type): Likewise.
* gnu/services/ssh.scm (lsh-service-type)
(openssh-service-type, dropbear-service-type): Likewise.
</span></span></td><td>Ludovic Courtès</td></tr>
<tr><td><span title='2017-08-31 14:43:26 +0200'>2017-08-31</span></td><td><a href='/guix/commit/gnu/services/audio.scm?id=b6dc69af1de806e8b3a70e9a1afe0e1590da5480'>services: mpd: Remove the mpd-file field.</a><span class='msg-avail'>...<span class='msg-tooltip'>Since MPD switches user, the pid-file must be in a writable dir.  This
is now always /var/run/mpd/(user)/pid.

* gnu/services/audio.scm (mpd-service-type): Add a activation-service
extension.
(&lt;mpd-configuration&gt;)[pid-file]: Remove.
(mpd-service): Rename to...
(mpd-shepherd-service): ... this.
(mpd-file-name, mpd-service-activation): New procedure.
* doc/guix.texi (Audio Services): Document the changes.

Signed-off-by: Ludovic Courtès &lt;ludo@gnu.org&gt;
</span></span></td><td>Peter Mikkelsen</td></tr>
<tr><td><span title='2017-08-13 07:36:32 +0100'>2017-08-13</span></td><td><a href='/guix/commit/gnu/services/audio.scm?id=06465d2ba4291eb2046c90c3977a295a9b7c434b'>gnu: Add mpd service.</a><span class='msg-avail'>...<span class='msg-tooltip'>* doc/guix.texi: Add documentation.
* gnu/services/audio.scm (&lt;mpd-configuration&gt;): New record type.
  (mpd-service-type): New service type.
* gnu/tests/audio.scm: New file.
* gnu/local.mk: Add new files.

Signed-off-by: Christopher Baines &lt;mail@cbaines.net&gt;
</span></span></td><td>Peter Mikkelsen</td></tr>