1 files changed, 54 insertions(+), 48 deletions(-)

M gnu/packages/bioinformatics.scm

@@ 856,57 856,63 @@ suite native in R.")
       (license license:expat))))
 
 (define-public r-bpcells
-  (let ((commit "32ce67312185d3ed1046b4218dd3aaf1b35dcfda")
-        (revision "1"))
-    (package
-      (name "r-bpcells")
-      (version (git-version "0.1.0" revision commit))
-      (source (origin
-                (method git-fetch)
-                (uri (git-reference
-                      (url "https://github.com/bnprks/BPCells/")
-                      (commit commit)))
-                (file-name (git-file-name name version))
-                (sha256
-                 (base32
-                  "0im4sqvbii326acmd1hnimyzsllnbvnh9al3dp1nla6isgi7s6cg"))))
-      (properties `((upstream-name . "BPCells")))
-      (build-system r-build-system)
-      (arguments
-       (list
-        #:phases
-        '(modify-phases %standard-phases
-           (add-after 'unpack 'do-not-tune
-             (lambda _
-               (substitute* "configure"
-                 (("\"-march=native\"") "\"\"")))))))
-      (inputs (list hdf5 zlib))
-      (propagated-inputs (list r-dplyr
-                               r-ggplot2
-                               r-ggrepel
-                               r-hexbin
-                               r-magrittr
-                               r-matrix
-                               r-patchwork
-                               r-rcolorbrewer
-                               r-rcpp
-                               r-rcppeigen
-                               r-rlang
-                               r-scales
-                               r-scattermore
-                               r-stringr
-                               r-tibble
-                               r-tidyr
-                               r-vctrs))
-      (native-inputs (list pkg-config))
-      (home-page "https://github.com/bnprks/BPCells/")
-      (synopsis "Single cell counts matrices to PCA")
-      (description
-       "This is a package providing efficient operations for single cell
+  (package
+    (name "r-bpcells")
+    (version "0.3.0")
+    (source
+     (origin
+       (method git-fetch)
+       (uri (git-reference
+             (url "https://github.com/bnprks/BPCells")
+             (commit (string-append "v" version))))
+       (file-name (git-file-name name version))
+       (sha256
+        (base32 "12h1di45fg06nhsliii7v0h1z567pkpis1xm4ar1qr8ns1n8iljw"))))
+    (properties `((upstream-name . "BPCells")))
+    (build-system r-build-system)
+    (arguments
+     (list
+      #:phases
+      '(modify-phases %standard-phases
+         (add-after 'unpack 'chdir
+           (lambda _ (chdir "r"))))))
+    (propagated-inputs
+     (list r-dplyr
+           r-ggplot2
+           r-ggrepel
+           r-hexbin
+           r-lifecycle
+           r-magrittr
+           r-matrix
+           r-patchwork
+           r-rcolorbrewer
+           r-rcpp
+           r-rcppeigen
+           r-readr
+           r-rlang
+           r-scales
+           r-scattermore
+           r-stringr
+           r-tibble
+           r-tidyr
+           r-vctrs
+
+           ;; Suggested packages
+           r-genomicranges
+           r-igraph
+           r-iranges
+           r-matrixstats))
+    (inputs (list hdf5 zlib))
+    (native-inputs (list pkg-config))
+    (home-page "https://github.com/bnprks/BPCells")
+    (synopsis "Single cell counts matrices to PCA")
+    (description
+     "This is a package providing efficient operations for single cell
 ATAC-seq fragments and RNA counts matrices.  It is interoperable with standard
 file formats, and introduces efficient bit-packed formats that allow large
 storage savings and increased read speeds.")
-      (license license:gpl3))))
+    ;; Either license
+    (license (list license:asl2.0 license:expat))))
 
 (define-public r-btools
   (let ((commit "fa21d4ca01d37ea4d98b45582453f3bf95cbc2b5")