v2.2.0 (#458)

DESCRIPTION

@@ -1,5 +1,5 @@
 Package: GGally
-Version: 2.1.2.9000
+Version: 2.2.0
 License: GPL (>= 2.0)
 Title: Extension to 'ggplot2'
 Type: Package
@@ -43,7 +43,8 @@ Imports:
     RColorBrewer,
     rlang,
     scales (>= 1.1.0),
-    utils
+    utils,
+    magrittr
 Suggests:
     broom (>= 0.7.0),
     broom.helpers (>= 1.3.0),

NAMESPACE

@@ -133,7 +133,6 @@ export(wrapp)
 import(RColorBrewer)
 import(ggplot2)
 import(utils)
-importFrom(dplyr,"%>%")
 importFrom(dplyr,all_of)
 importFrom(dplyr,group_by)
 importFrom(dplyr,rename)
@@ -166,6 +165,7 @@ importFrom(grid,upViewport)
 importFrom(grid,viewport)
 importFrom(gtable,gtable_filter)
 importFrom(lifecycle,deprecate_soft)
+importFrom(magrittr,"%>%")
 importFrom(plyr,ddply)
 importFrom(plyr,summarize)
 importFrom(rlang,"%||%")

NEWS.md

@@ -1,8 +1,8 @@
-# GGally (development version)
+# GGally 2.2.0
 
 ### Bug fixes
 
-* removed dependency on reshape2 (#475)
+* Removed dependency on reshape2 (#475)
 * Reverse ordering of y-axis in `ggally_count()` (#420)
 * Facets ordering in `ggcoef_compare()` (#426)
 * Fix in `ggcoef_compare()` when using tidy selectors for
@@ -12,7 +12,7 @@
 * New default tidier for `ggcoef_model()`, now using
   `broom.helpers::tidy_with_broom_or_parameters()` (#432)
 * Re-export methods from and redirect vignettes to the `{ggstats}` package (#452, #457)
-* Replaced ..scaled.. with after_stat(scaled) in ggscatmat (#467)
+* Replaced `..scaled..` with `after_stat(scaled)` in ggscatmat (#467)
 
 
 # GGally 2.1.2

R/GGally-package.R

@@ -18,15 +18,3 @@ NULL
 # \lifecycle{deprecated}
 # \lifecycle{defunct}
 # \lifecycle{archived}
-
-#' Pipe operator
-#'
-#' See \code{magrittr::\link[magrittr:pipe]{\%>\%}} for details.
-#'
-#' @name %>%
-#' @rdname pipe
-#' @keywords internal
-#' @export
-#' @importFrom dplyr %>%
-#' @usage lhs \%>\% rhs
-NULL

R/ggcoef.R

@@ -13,7 +13,7 @@
 #' @param exclude_intercept should the intercept be excluded from the plot?
 #' @param vline print a vertical line?
 #' @param vline_intercept \code{xintercept} for the vertical line.
-#' \code{"auto"} for \code{x = 0} (or \code{x = 1} if {exponentiate} is \code{TRUE})
+#' \code{"auto"} for \code{x = 0} (or \code{x = 1} if \code{exponentiate} is \code{TRUE})
 #' @param vline_color color of the vertical line
 #' @param vline_linetype line type of the vertical line
 #' @param vline_size size of the vertical line

R/ggnostic.R

@@ -370,7 +370,7 @@ ggally_nostic_sigma <- function(
 #' A function to display [stats::cooks.distance()].
 #'
 #' @details
-#' A line is added at F_{p, n - p}(0.5) to display the general cutoff point for Cook's Distance.
+#' A line is added at \eqn{F_{p,n-p}(0.5)}{F[p,n-p](0.5)} to display the general cutoff point for Cook's Distance.
 #'
 #' Reference: Michael H. Kutner, Christopher J. Nachtsheim, John Neter, and William Li. Applied linear statistical models. The McGraw-Hill / Irwin series operations and decision sciences. McGraw-Hill Irwin, 2005, p. 403
 #'

R/ggparcoord.R

@@ -10,7 +10,7 @@ if (getRversion() >= "2.15.1") {
 #'
 #' \code{scale} is a character string that denotes how to scale the variables
 #' in the parallel coordinate plot. Options:
-#' \itemize{
+#' \describe{
 #'   \item{\code{std}}{: univariately, subtract mean and divide by standard deviation}
 #'   \item{\code{robust}}{: univariately, subtract median and divide by median absolute deviation}
 #'   \item{\code{uniminmax}}{: univariately, scale so the minimum of the variable is zero, and the maximum is one}
@@ -24,7 +24,7 @@ if (getRversion() >= "2.15.1") {
 #'
 #' \code{missing} is a character string that denotes how to handle missing
 #'   missing values. Options:
-#' \itemize{
+#' \describe{
 #'   \item{\code{exclude}}{: remove all cases with missing values}
 #'   \item{\code{mean}}{: set missing values to the mean of the variable}
 #'   \item{\code{median}}{: set missing values to the median of the variable}
@@ -34,7 +34,7 @@ if (getRversion() >= "2.15.1") {
 #'
 #' \code{order} is either a vector of indices or a character string that denotes how to
 #'   order the axes (variables) of the parallel coordinate plot. Options:
-#' \itemize{
+#' \describe{
 #'   \item{\code{(default)}}{: order by the vector denoted by \code{columns}}
 #'   \item{\code{(given vector)}}{: order by the vector specified}
 #'   \item{\code{anyClass}}{: order variables by their separation between any one class and
@@ -452,12 +452,14 @@ ggparcoord <- function(
   #   mappingNames <- names(mapping)
   # }
   # data.m <- melt(data, id.vars = meltIDVars, measure.vars = columns)
-  data.m <- pivot_longer(
+  # Return a data.frame for freqparcoord::freqparcoord.
+  # The method uses vector recycling, which is not allowed in a tibble
+  data.m <- as.data.frame(pivot_longer(
     data,
     cols = all_of(columns),
     names_to = "variable",
     values_to = "value"
-  )
+  ))
 
   ### Ordering ###
   if (length(order) > 1 && is.numeric(order)) {

R/utils-pipe.R

@@ -0,0 +1,14 @@
+#' Pipe operator
+#'
+#' See \code{magrittr::\link[magrittr:pipe]{\%>\%}} for details.
+#'
+#' @name %>%
+#' @rdname pipe
+#' @keywords internal
+#' @export
+#' @importFrom magrittr %>%
+#' @usage lhs \%>\% rhs
+#' @param lhs A value or the magrittr placeholder.
+#' @param rhs A function call using the magrittr semantics.
+#' @return The result of calling `rhs(lhs)`.
+NULL

cran-comments.md

@@ -1,56 +1,77 @@
 
 ## Comments
-#### 2021-06-20
+#### 2023-11-22
 
-I have fixed the failing tests due to an update in `network` package. `GGally` now requires the latest version of the `network` package and should pass the tests.
+Thank you for being patient with me on my submission.
 
-Thank you,
+I have fixed the packageVersion issue by removing the unecessary code: https://github.com/ggobi/ggally/commit/9e7228c6d4219c515857426a982d1a5c1ff0cd13
+
+The update also contains bug fixes and new datasets.
+
+Please let me know if there is anything else I can do to help. Thank you again for your patience!!
+
+Best,
 Barret
 
-#### 2021-06-08
 
-Dear maintainer,
+#### 2023-11-07
 
-Please see the problems shown on
-<https://cran.r-project.org/web/checks/check_results_GGally.html>.
+Can you please change to "3.3"?
 
-Please correct before 2021-06-22 to safely retain your package on CRAN.
+Please fix before 2023-11-21 to safely retain your package on CRAN.
 
-Best,
+Best
 -k
 
 
+#### 2023-07-18
+
+[packageVersion() should only compare against strings.]
+
+....
+
+Please correct before 2023-08-16 to safely retain your package on CRAN.
+
+....
+
+Best
+-k
+
+**********************************
+
+$GGally
+$GGally$`GGally/R/gg-plots.R`
+$GGally$`GGally/R/gg-plots.R`[[1]]
+packageVersion("ggplot2") >= 3.3
+
+
 
-## Test environments and R CMD check results
+## R CMD check results
 
-* local macOS install 11.3.1
-  * R 4.0
-* GitHub Actions - https://github.com/ggobi/ggally/pull/419/checks
-  * macOS, windows, ubuntu {16,20} - R release
-  * macOS, windows, ubuntu {16,20} - R oldrelease
+* 0 errors | 0 warnings | 1 note
 
-* win-builder
-  * devel
-  * release
-  * oldrelease
+  Maintainer: ‘Barret Schloerke <schloerke@gmail.com>’
 
-#### R CMD check results
+  Found the following (possibly) invalid URLs:
+    URL: https://www.oecd.org/pisa/pisaproducts/database-cbapisa2012.htm
+      From: man/australia_PISA2012.Rd
+      Status: 403
+      Message: Forbidden
 
-* 0 errors | 0 warnings | 0 notes
+When visiting the link manually, the link works as expected. I believe they have a bot blocker that is causing this error.
 
 
 ## revdepcheck results
 
-We checked 125 reverse dependencies (100 from CRAN + 25 from BioConductor), comparing R CMD check results across CRAN and dev versions of this package.
+We checked 158 reverse dependencies (128 from CRAN + 30 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package.
 
  * We saw 0 new problems
- * We failed to check 2 packages
+ * We failed to check 3 packages
 
 Issues with CRAN packages are summarised below.
 
 ### Failed to check
 
-* egoTERGM    (NA)
-  * Package is archived. I believe this is a false positive
-* loon.ggplot (NA)
-  * Could not install `loon`. The changes made for this release should have a negative effect on their code.
+* fingerPro   (NA) - depends on rjags; Could not install rjags
+* loon.ggplot (NA) - Trying to attached to a null device
+* simmr       (NA) - depends on rjags; Could not install rjags

inst/WORDLIST

@@ -175,3 +175,4 @@ Homewood
 ibb
 rbi
 sb
+magrittr