Merge pull request #125 from jfisher-usgs/master

merge with upstream

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: inlmisc
 Title: Miscellaneous Functions for the USGS INL Project Office
-Version: 0.4.7.9000
+Version: 0.4.8
 Authors@R: person(given=c("Jason", "C."), family="Fisher", role=c("aut", "cre"), email="[email protected]", comment=c(ORCID="0000-0001-9032-8912"))
 Description: A collection of functions for creating high-level graphics,
     performing raster-based analysis, processing MODFLOW-based models,

NEWS.md

@@ -1,4 +1,4 @@
-# inlmisc 0.4.7.9000
+# inlmisc 0.4.8
 
 - In `FindOptimalSubset` function, add `numIslands` argument, used to specify the number of islands,
   was previously dependent on the `parallel` argument;

R/AddInsetMap.R

@@ -24,7 +24,7 @@
 #'   Defaults to the user coordinate extent of the main plot region, see \code{par("usr")}.
 #' @param bty 'character' string.
 #'   Type of box to be drawn about the inset map.
-#'   A value of \code{"o"} (the default) results in a box and a value of \code{"n"} supresses the box.
+#'   A value of \code{"o"} (the default) results in a box and a value of \code{"n"} suppresses the box.
 #'
 #' @return Invisible \code{NULL}
 #'

R/AddPoints.R

@@ -59,7 +59,7 @@
 #' @param bty 'character' string.
 #'   Type of box to be drawn about the legend.
 #'   A value of \code{"o"} (the default) results in a box and
-#'   a value of \code{"n"} supresses the box.
+#'   a value of \code{"n"} suppresses the box.
 #' @param breaks 'numeric' vector.
 #'   Finite breakpoints for the legend circle symbols.
 #' @param break.labels 'character' vector.
@@ -77,7 +77,7 @@
 #' @param draw.legend 'logical' flag.
 #'   If true, a legend is drawn.
 #' @param draw.points 'logical' flag.
-#'   If true, the circle symobls are drawn.
+#'   If true, the circle symbols are drawn.
 #' @param add 'logical' flag.
 #'   If true, circle symbols (and an optional legend) are added to an existing plot.
 #' @param ...

R/FindOptimalSubset.R

@@ -41,7 +41,7 @@
 #'   \dQuote{best} fitness value before the GA is stopped.
 #' @param suggestions integer 'matrix'.
 #'   Integer chromosomes to be included in the initial population.
-#'   See returned \code{solution} component for a suggested value for this arugment.
+#'   See returned \code{solution} component for a suggested value for this argument.
 #' @param parallel 'logical' flag or 'integer' count.
 #'   Whether to use parallel computing.
 #'   This argument can also be used to specify the number of cores to employ; by default,
@@ -101,7 +101,7 @@
 #'
 #' @examples
 #' # Problem: Choose the 4 smallest numbers from a list
-#' #          of 100 values genearated from a standard
+#' #          of 100 values generated from a standard
 #' #          uniform distribution.
 #' k <- 4
 #' n <- 100

R/Grid2Polygons.R

@@ -6,31 +6,31 @@
 #' and result in much "cleaner" images when plotted.
 #'
 #' @param grd 'SpatialGridDataFrame', 'SpatialPixelsDataFrame', or 'Raster*'.
-#'    Spatial grid
+#'   Spatial grid
 #' @param zcol 'character' string or 'integer' count.
-#'    Layer to extract from a multi-layer spatial grid.
+#'   Layer to extract from a multi-layer spatial grid.
 #' @param level 'logical' flag.
-#'    If true, a set of levels is used to partition the range of attribute values,
-#'    its default is false.
+#'   If true, a set of levels is used to partition the range of attribute values,
+#'   its default is false.
 #' @param at 'numeric' vector.
-#'    Breakpoints along the range of attribute values.
+#'   Breakpoints along the range of attribute values.
 #' @param cuts 'integer' count.
-#'    Number of levels the range of attribute values would be divided into.
+#'   Number of levels the range of attribute values would be divided into.
 #' @param pretty 'logical' flag.
-#'    Whether to use pretty cut locations.
+#'   Whether to use pretty cut locations.
 #' @param xlim 'numeric' vector of length 2.
-#'    Left and right limits of the spatial grid, data outside these limits is excluded.
+#'   Left and right limits of the spatial grid, data outside these limits is excluded.
 #' @param ylim 'numeric' vector of length 2.
-#'    Lower and upper limits of the spatial grid,
-#'    data outside these limits is excluded.
+#'   Lower and upper limits of the spatial grid,
+#'   data outside these limits is excluded.
 #' @param zlim 'numeric' vector of length 2.
-#'    Minimum and maximum limits of the attribute variable,
-#'    data outside these limits is excluded.
+#'   Minimum and maximum limits of the attribute variable,
+#'   data outside these limits is excluded.
 #' @param ply 'SpatialPolygons', or 'SpatialGridDataFrame'.
-#'    Cropping polygon
+#'   Cropping polygon
 #' @param check_validity 'logical' flag.
-#'    If true (default), check the validity of polygons.
-#'    If any of the polygons are invalid, try making them valid by zero-width buffering.
+#'   If true (default), check the validity of polygons.
+#'   If any of the polygons are invalid, try making them valid by zero-width buffering.
 #'
 #' @return An object of class 'SpatialPolygonsDataFrame'.
 #'   The objects \code{data} slot is a data frame, number of rows equal to

R/PrintPackageHelp.R

@@ -18,7 +18,7 @@
 #' @param sep 'character' string.
 #'   HTML to separate help topics, a horizontal line by default.
 #' @param notrun 'logical' flag.
-#'   Whether to inlcude \code{## Not run} comments in the Examples section of help documentation.
+#'   Whether to include \code{## Not run} comments in the Examples section of help documentation.
 #' @param links 'character' vector.
 #'   Names of packages searched (level 0) when creating internal hyperlinks to functions and datasets.
 #' @param ...

R/ReadModflowBinary.R

@@ -11,7 +11,7 @@
 #'   \code{"flow"} for cell-by-cell flow data (budget data).
 #' @param endian 'character' string.
 #'   Endian-ness (or byte-order) of the binary file.
-#' @param rm.totim.0 'logical' falg.
+#' @param rm.totim.0 'logical' flag.
 #'   Whether data associated with the stress period at time zero should be removed.
 #'
 #' @return A 'list' of length equal to the