Don't run example for create_scoringmatrix as it takes too long for CRAN

The example contains lots of useful commands and so it seems better to just not run it, rather than to trim it down

Author: jdmanton

R/smat.r

@@ -46,6 +46,7 @@
 #' @seealso \code{\link{calc_score_matrix}, \link{calc_prob_mat},
 #'   \link{calc_dists_dotprods}, \link{neuron_pairs}}
 #' @examples
+#' \dontrun{
 #' # calculate scoring matrix
 #' # bring in some mushroom body neurons
 #' library(nat)
@@ -71,7 +72,6 @@
 #' filled.contour(x=distbreaks, y=dotprodbreaks, z=smat, col=jet.colors(20),
 #'   main='smat: log odds ratio', xlab='distance /um', ylab='abs dot product')
 #'
-#' \dontrun{
 #' # 3d perspective plot of the scoring matrix
 #' persp3d(x=distbreaks, y=dotprodbreaks, z=smat, col=jet.colors(20)[cut(smat,20)],
 #' xlab='distance /um', ylab='abs dot product', zlab='log odds ratio')

man/create_scoringmatrix.Rd

@@ -68,6 +68,7 @@ By default \code{create_scoringmatrix} will use all neurons in
   calls.
 }
 \examples{
+\dontrun{
 # calculate scoring matrix
 # bring in some mushroom body neurons
 library(nat)
@@ -93,7 +94,6 @@ jet.colors <- colorRampPalette( c("blue", "green", "yellow", "red") )
 filled.contour(x=distbreaks, y=dotprodbreaks, z=smat, col=jet.colors(20),
   main='smat: log odds ratio', xlab='distance /um', ylab='abs dot product')
 
-\dontrun{
 # 3d perspective plot of the scoring matrix
 persp3d(x=distbreaks, y=dotprodbreaks, z=smat, col=jet.colors(20)[cut(smat,20)],
 xlab='distance /um', ylab='abs dot product', zlab='log odds ratio')