From: zimoun <zimon.toutoune@gmail.com>
To: 43400@debbugs.gnu.org
Cc: zimoun <zimon.toutoune@gmail.com>
Subject: [bug#43400] [PATCH 07/12] gnu: r-singlecellexperiment: Move to (gnu packages bioconductor).
Date: Mon, 14 Sep 2020 18:07:42 +0200 [thread overview]
Message-ID: <20200914160747.8983-7-zimon.toutoune@gmail.com> (raw)
In-Reply-To: <20200914160747.8983-1-zimon.toutoune@gmail.com>
* gnu/packages/bioinformatics.scm (r-singlecellexperiment): Move from here...
* gnu/packages/bioconductor.scm (r-singlecellexperiment): ...to here.
---
gnu/packages/bioconductor.scm | 29 +++++++++++++++++++++++++++++
gnu/packages/bioinformatics.scm | 29 -----------------------------
2 files changed, 29 insertions(+), 29 deletions(-)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 52685a4df1..d9f7a9fb67 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -8336,6 +8336,35 @@ routines.")
objects from the @code{graph} package.")
(license license:epl1.0)))
+(define-public r-singlecellexperiment
+ (package
+ (name "r-singlecellexperiment")
+ (version "1.10.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "SingleCellExperiment" version))
+ (sha256
+ (base32
+ "092wvk11n7pa234vlwhxm3gdi4k3sbnz1splhxalbdhz3jf02zfp"))))
+ (properties
+ `((upstream-name . "SingleCellExperiment")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biocgenerics" ,r-biocgenerics)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-summarizedexperiment" ,r-summarizedexperiment)))
+ (native-inputs
+ `(("r-knitr" ,r-knitr)))
+ (home-page "https://bioconductor.org/packages/SingleCellExperiment")
+ (synopsis "S4 classes for single cell data")
+ (description "This package defines an S4 class for storing data from
+single-cell experiments. This includes specialized methods to store and
+retrieve spike-in information, dimensionality reduction coordinates and size
+factors for each cell, along with the usual metadata for genes and
+libraries.")
+ (license license:gpl3)))
+
(define-public r-scater
(package
(name "r-scater")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 8dea6df8a1..ef6d6fc2d8 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -10791,35 +10791,6 @@ variety of commonly used matrix types, including sparse and HDF5-backed
matrices.")
(license license:gpl3)))
-(define-public r-singlecellexperiment
- (package
- (name "r-singlecellexperiment")
- (version "1.10.1")
- (source
- (origin
- (method url-fetch)
- (uri (bioconductor-uri "SingleCellExperiment" version))
- (sha256
- (base32
- "092wvk11n7pa234vlwhxm3gdi4k3sbnz1splhxalbdhz3jf02zfp"))))
- (properties
- `((upstream-name . "SingleCellExperiment")))
- (build-system r-build-system)
- (propagated-inputs
- `(("r-biocgenerics" ,r-biocgenerics)
- ("r-s4vectors" ,r-s4vectors)
- ("r-summarizedexperiment" ,r-summarizedexperiment)))
- (native-inputs
- `(("r-knitr" ,r-knitr)))
- (home-page "https://bioconductor.org/packages/SingleCellExperiment")
- (synopsis "S4 classes for single cell data")
- (description "This package defines an S4 class for storing data from
-single-cell experiments. This includes specialized methods to store and
-retrieve spike-in information, dimensionality reduction coordinates and size
-factors for each cell, along with the usual metadata for genes and
-libraries.")
- (license license:gpl3)))
-
(define-public r-dropbead
(let ((commit "d746c6f3b32110428ea56d6a0001ce52a251c247")
(revision "2"))
--
2.28.0
next prev parent reply other threads:[~2020-09-14 16:43 UTC|newest]
Thread overview: 14+ messages / expand[flat|nested] mbox.gz Atom feed top
2020-09-14 16:04 [bug#43400] [PATCH 00/12] Move some BioConductor to (gnu packages bioconductor) zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 01/12] gnu: r-fourcseq: Move " zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 02/12] gnu: r-preprocesscore: " zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 03/12] gnu: r-rgraphviz: " zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 04/12] gnu: r-delayedmatrixstats: " zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 05/12] gnu: r-scran: " zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 06/12] gnu: r-scater: " zimoun
2020-09-14 16:07 ` zimoun [this message]
2020-09-14 16:07 ` [bug#43400] [PATCH 08/12] gnu: r-beachmat: " zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 09/12] gnu: r-rhdf5lib: " zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 11/12] gnu: r-hitc: " zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 12/12] gnu: r-fithic: " zimoun
2020-09-14 16:07 ` [bug#43400] [PATCH 10/12] gnu: r-hdf5array: " zimoun
2020-09-14 19:42 ` bug#43400: [PATCH 00/12] Move some BioConductor " Ricardo Wurmus
Reply instructions:
You may reply publicly to this message via plain-text email
using any one of the following methods:
* Save the following mbox file, import it into your mail client,
and reply-to-all from there: mbox
Avoid top-posting and favor interleaved quoting:
https://en.wikipedia.org/wiki/Posting_style#Interleaved_style
List information: https://guix.gnu.org/
* Reply using the --to, --cc, and --in-reply-to
switches of git-send-email(1):
git send-email \
--in-reply-to=20200914160747.8983-7-zimon.toutoune@gmail.com \
--to=zimon.toutoune@gmail.com \
--cc=43400@debbugs.gnu.org \
/path/to/YOUR_REPLY
https://kernel.org/pub/software/scm/git/docs/git-send-email.html
* If your mail client supports setting the In-Reply-To header
via mailto: links, try the mailto: link
Be sure your reply has a Subject: header at the top and a blank line
before the message body.
Code repositories for project(s) associated with this public inbox
https://git.savannah.gnu.org/cgit/guix.git
This is a public inbox, see mirroring instructions
for how to clone and mirror all data and code used for this inbox;
as well as URLs for read-only IMAP folder(s) and NNTP newsgroup(s).