Merge branch 'master' into staging

1 files changed, 40 insertions, 29 deletions

diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 4ef2f922ec..406ccc644b 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -4066,20 +4066,22 @@ to variables on the left-hand side of the assignment.")
 (define-public r-vctrs
   (package
     (name "r-vctrs")
-    (version "0.2.3")
+    (version "0.2.4")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "vctrs" version))
        (sha256
         (base32
-         "1pnjnxp1pwsr083qa6xp5akls6q0pnjz8pq2m9d7z3kc1886sw8w"))))
+         "15sgzs6afvmhssk6jcg41rn3bvmzmbm4sgca6f6x8lfrsazvdj6w"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-digest" ,r-digest)
        ("r-ellipsis" ,r-ellipsis)
        ("r-glue" ,r-glue)
        ("r-rlang" ,r-rlang)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/r-lib/vctrs")
     (synopsis "Vector helpers")
     (description
@@ -5168,14 +5170,14 @@ specific S3-method.")
 (define-public r-vim
   (package
     (name "r-vim")
-    (version "5.1.0")
+    (version "5.1.1")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "VIM" version))
        (sha256
         (base32
-         "09600piny3qrxrmh8844iwrvgrhwan1c3nlh6irqy1vjha2w4gb3"))))
+         "0w22ir0gvym7gqd6nw2j7w5ivlb3az1dkfxv33imimkb7c83056a"))))
     (properties `((upstream-name . "VIM")))
     (build-system r-build-system)
     (propagated-inputs
@@ -5303,14 +5305,14 @@ contain lags, diffs and missing values.")
 (define-public r-catdap
   (package
     (name "r-catdap")
-    (version "1.3.4")
+    (version "1.3.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "catdap" version))
        (sha256
         (base32
-         "0i877l61f6c75pczi235rzci67w29zv1d7z5zn5p5ymndclvlpl2"))))
+         "0fyhl69z2lznymvpzxra9qvcg85ggzkfjy68c6mzdmf1ja44d2k5"))))
     (build-system r-build-system)
     (native-inputs
      `(("gfortran" ,gfortran)))
@@ -8585,20 +8587,19 @@ conversion of indices such as Cohen's d, r, odds, etc.")
 (define-public r-sjplot
   (package
     (name "r-sjplot")
-    (version "2.8.2")
+    (version "2.8.3")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "sjPlot" version))
        (sha256
-        (base32 "16721a5006q0gv45zjcwnkykxhjkzpq5n35vhik0g0ixgm3a2vci"))))
+        (base32 "0ip1rkjlhyf3axlc8qqss1qq1f0xrda890c1jmcbhm98wwjw264f"))))
     (properties `((upstream-name . "sjPlot")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-bayestestr" ,r-bayestestr)
        ("r-dplyr" ,r-dplyr)
        ("r-effectsize" ,r-effectsize)
-       ("r-forcats" ,r-forcats)
        ("r-ggeffects" ,r-ggeffects)
        ("r-ggplot2" ,r-ggplot2)
        ("r-insight" ,r-insight)
@@ -8613,6 +8614,8 @@ conversion of indices such as Cohen's d, r, odds, etc.")
        ("r-sjmisc" ,r-sjmisc)
        ("r-sjstats" ,r-sjstats)
        ("r-tidyr" ,r-tidyr)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://strengejacke.github.io/sjPlot/")
     (synopsis "Data visualization for statistics in social science")
     (description
@@ -9240,14 +9243,14 @@ package provides a minimal R interface by relying on the Rcpp package.")
 (define-public r-rcppparallel
   (package
     (name "r-rcppparallel")
-    (version "4.4.4")
+    (version "5.0.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "RcppParallel" version))
        (sha256
         (base32
-         "0p13f2mywjr7gmskf8ri4y8p5yr1bvr4xrpw2w11vdvafwz1vcia"))))
+         "1mhd6vp47xmfw533h0pkvydv96m57fspvd85g8m7iqb5rcxvhhdb"))))
     (properties `((upstream-name . "RcppParallel")))
     (build-system r-build-system)
     (home-page "http://rcppcore.github.io/RcppParallel")
@@ -9823,13 +9826,13 @@ maps.")
 (define-public r-tidytree
   (package
     (name "r-tidytree")
-    (version "0.3.1")
+    (version "0.3.2")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "tidytree" version))
        (sha256
-        (base32 "1bnzs62z2l8ck2h9gabmxvayizv4nfn8dmyzry83fv0cspjbyiv7"))))
+        (base32 "0dx9jn19mfykn20camsmq1amlgg0w6z5hn5rdqygs1fk1l5aazad"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ape" ,r-ape)
@@ -9838,6 +9841,8 @@ maps.")
        ("r-magrittr" ,r-magrittr)
        ("r-rlang" ,r-rlang)
        ("r-tibble" ,r-tibble)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/GuangchuangYu/tidytree")
     (synopsis "Tidy tool for phylogenetic tree data manipulation")
     (description
@@ -11200,14 +11205,14 @@ covariance functions for large data sets.")
 (define-public r-spatialextremes
   (package
     (name "r-spatialextremes")
-    (version "2.0-7.2")
+    (version "2.0-8")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "SpatialExtremes" version))
        (sha256
         (base32
-         "0aqq9ryxi4xsdqjhc1lhb7ai8szs7m2vys6nn0ygps1w3pm4xwj8"))))
+         "0r2byz5xxc46zqnigdax28q7446ibmzmsmi10lmm2hdks3ml6sl3"))))
     (properties
      `((upstream-name . "SpatialExtremes")))
     (build-system r-build-system)
@@ -13245,13 +13250,13 @@ also provided to illustrate various methods.")
 (define-public r-pegas
   (package
     (name "r-pegas")
-    (version "0.12")
+    (version "0.13")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "pegas" version))
        (sha256
-        (base32 "0sb8cmz4d238mcb56hv9fa0cagm00k82r7aj4cj4lxa1flxlpy8p"))))
+        (base32 "002i7s4g0nhnq0v05gs0yssqiyhpq2f7rw2rhn31hsbgxc86frvy"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-adegenet" ,r-adegenet)
@@ -14077,19 +14082,21 @@ package.")
 (define-public r-ggplotify
   (package
     (name "r-ggplotify")
-    (version "0.0.4")
+    (version "0.0.5")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ggplotify" version))
        (sha256
         (base32
-         "0nv3wdmxnc5ww9m3xlgnb0jp30j45dg33nqc6gg3y36svg8anjcg"))))
+         "0pfnp4lrissf21z7867kdm6slr979kchyva8iaf83i1302kscph3"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-ggplot2" ,r-ggplot2)
        ("r-gridgraphics" ,r-gridgraphics)
        ("r-rvcheck" ,r-rvcheck)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/GuangchuangYu/ggplotify")
     (synopsis "Convert plots to @code{grob} or @code{ggplot} object")
     (description
@@ -15212,14 +15219,14 @@ includes data sets from oceanography.")
 (define-public r-ggfortify
   (package
     (name "r-ggfortify")
-    (version "0.4.8")
+    (version "0.4.9")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "ggfortify" version))
        (sha256
         (base32
-         "191q2z7w0l4v7swjlxs2hjgbjngw2838688s7ygnj0kigsm310f3"))))
+         "1p6knrbyaynaqwd939w09hpf1zz1gn95cb46sfgppl8l98krb2h5"))))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-dplyr" ,r-dplyr)
@@ -15229,6 +15236,8 @@ includes data sets from oceanography.")
        ("r-stringr" ,r-stringr)
        ("r-tibble" ,r-tibble)
        ("r-tidyr" ,r-tidyr)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://github.com/sinhrks/ggfortify")
     (synopsis "Data visualization tools for statistical analysis results")
     (description
@@ -15754,14 +15763,14 @@ be used further by e.g. graphic devices.")
 (define-public r-graphlayouts
   (package
     (name "r-graphlayouts")
-    (version "0.5.0")
+    (version "0.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "graphlayouts" version))
        (sha256
         (base32
-         "03dizbhhdhnzbj2i5zvqgs617kwcv4h2pha4f16adic0fph1rxl3"))))
+         "1la016m37kp79zk8p1yx9kaha8y6d4w52w39h0mzv1mfsi6d75w0"))))
     (properties `((upstream-name . "graphlayouts")))
     (build-system r-build-system)
     (propagated-inputs
@@ -15871,19 +15880,21 @@ in pipelines.")
 (define-public r-parameters
   (package
     (name "r-parameters")
-    (version "0.5.0")
+    (version "0.6.0")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "parameters" version))
        (sha256
         (base32
-         "19cblrq079svp5j3wgikw5fsdbsp1w0f2llm7kcf1rg5w1aagjr7"))))
+         "0zin3ikc013hc713n5zs0dbhc3m4nfw1vhc3924z0mrww8r241xn"))))
     (properties `((upstream-name . "parameters")))
     (build-system r-build-system)
     (propagated-inputs
      `(("r-bayestestr" ,r-bayestestr)
        ("r-insight" ,r-insight)))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
     (home-page "https://cran.r-project.org/web/packages/parameters")
     (synopsis "Processing of model parameters")
     (description
@@ -20086,14 +20097,14 @@ translated to input syntax for the R packages @code{sem} and @code{lavaan}.")
 (define-public r-cdm
   (package
     (name "r-cdm")
-    (version "7.4-19")
+    (version "7.5-15")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "CDM" version))
        (sha256
         (base32
-         "1ln1r3rk004fmk55iy08bjh3vv4wnkb8zg2wj3r9rq7pi8jn8fv4"))))
+         "159ny2dz0rf1r3k1mqlfwambffc8rx425sggf5bn51nybpzanq3l"))))
     (properties `((upstream-name . "CDM")))
     (build-system r-build-system)
     (propagated-inputs
@@ -20120,14 +20131,14 @@ well as Ravand and Robitzsch (2015).")
 (define-public r-tam
   (package
     (name "r-tam")
-    (version "3.3-10")
+    (version "3.4-26")
     (source
      (origin
        (method url-fetch)
        (uri (cran-uri "TAM" version))
        (sha256
         (base32
-         "1rkjp5x6wrk1dfspp1imvfals0wvy4w1wb8a5mhfbnilc7vgnlbq"))))
+         "111d7qkxhwh1lfvldyh9d61pdb5vb6x8lr8n9h95ssvw07vjqvk9"))))
     (properties `((upstream-name . "TAM")))
     (build-system r-build-system)
     (propagated-inputs