guix_mirror_bot pushed a commit to branch master
in repository guix.
commit ce7b0bd514745eff2078837389091deae1eabb56
Author: Ricardo Wurmus <[email protected]>
AuthorDate: Fri Feb 20 14:06:38 2026 +0100
gnu: r-giotto: Update to 4.2.2-1.7988300.
* gnu/packages/bioinformatics.scm (r-giotto): Update to 4.2.2-1.7988300.
[source]: Fetch from true upstream.
[arguments]: Disable tests.
[propagated-inputs]: Add r-arrow, r-biocparallel, r-biocsingular, r-bluster,
r-checkmate, r-future-apply, r-giottoclass, r-giottoutils, r-giottovisuals,
r-limma, r-matrixgenerics, r-sparsematrixstats, r-terra, and r-uwot; remove
r-cowplot, r-deldir, r-farver, r-ggrepel, r-irlba, r-lfa, r-magick,
r-magrittr, r-matrixstats, r-qvalue, r-rcolorbrewer, r-rcpp, r-reshape2, and
r-rtsne.
[native-inputs]: Add r-testthat.
[home-page]: Update to true upstream.
Change-Id: I938e0c19fcc68fe4b100646fe051ff1a42411092
---
gnu/packages/bioinformatics.scm | 61 +++++++++++++++++++++--------------------
1 file changed, 32 insertions(+), 29 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 9d0fe28bc9..9623dd6d4b 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -19486,57 +19486,60 @@ functionality for Giotto Suite.")
(license license:expat))))
(define-public r-giotto
- (let ((commit "3e6671a2512484a7b90b421b7e697d1abc2ec760")
+ (let ((commit "7988300d59d7ca67c6203411794f1f3a813979d5")
(revision "1"))
(package
(name "r-giotto")
- (version (git-version "1.1.2" revision commit))
+ (version (git-version "4.2.2" revision commit))
(source
(origin
(method git-fetch)
(uri (git-reference
- (url "https://github.com/RubD/Giotto/";)
- (commit commit)))
+ (url "https://github.com/drieslab/Giotto";)
+ (commit commit)))
(file-name (git-file-name name version))
(sha256
- (base32 "086kyfhwqcd9qkl2yb9g4xgk8xs88ga4slha7rwilxm1sg8fhchf"))))
+ (base32 "1h3a6czswpczckc5cgcfsxjcil0pzq57fv8lfrgjl655qqs3riix"))))
(properties `((upstream-name . "Giotto")))
(build-system r-build-system)
+ ;; Test data are not included.
+ (arguments (list #:tests? #false))
(propagated-inputs
- (list r-clusterr
- r-complexheatmap
- r-cowplot
+ (list r-bluster
+ r-biocparallel
+ r-biocsingular
+ r-checkmate
r-data-table
r-dbscan
- r-deldir
- r-farver
- r-fitdistrplus
- r-ggdendro
r-ggplot2
r-ggraph
- r-ggrepel
+ r-giottoclass
+ r-giottoutils
+ r-giottovisuals
r-igraph
- r-irlba
- r-lfa
- r-limma
- r-magick
- r-magrittr
r-matrix
- r-matrixstats
+ r-matrixgenerics
+ r-reticulate
+ r-scales
+ r-sparsematrixstats
+ r-terra
+ r-uwot
+
+ ;; The following are suggested packages
+ r-arrow
+ r-clusterr
+ r-complexheatmap
+ r-fitdistrplus
+ r-future-apply
+ r-ggdendro
+ r-limma
r-plotly
- r-qvalue
r-r-utils
- r-rcolorbrewer
- r-rcpp
- r-reshape2
- r-reticulate
r-rfast
r-rlang
- r-rtsne
- r-scales
- r-uwot))
- (native-inputs (list r-knitr))
- (home-page "https://github.com/RubD/Giotto/";)
+ r-rtsne))
+ (native-inputs (list r-knitr r-testthat))
+ (home-page "https://github.com/drieslab/Giotto";)
(synopsis "Spatial single-cell transcriptomics toolbox")
(description
"This package provides a toolbox to process, analyze and visualize
