Earlier today I had been getting an warning message when loading pkg:rgl (and then failing to get any plotting to an X11 window), so I decided to re-install the binary 0.95.1201 from a CRAN mirror: XQuartz 2.7.8 has been installed and reinstalled multiple times including just a few minutes before this. Also have current XCode and CLT.
library(rgl) sessionInfo()
R version 3.2.3 (2015-12-10)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.11.2 (El Capitan)
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] grDevices utils datasets stats graphics grid methods
[8] base
other attached packages:
[1] rgl_0.95.1201 rms_4.4-0 SparseM_1.7 Hmisc_3.17-0
[5] ggplot2_2.0.0 Formula_1.2-1 survival_2.38-3 sos_1.3-8
[9] brew_1.0-6 lattice_0.20-33
loaded via a namespace (and not attached):
[1] Rcpp_0.12.2 cluster_2.0.3 splines_3.2.3
[4] munsell_0.4.2 colorspace_1.2-6 multcomp_1.4-1
[7] plyr_1.8.3 tools_3.2.3 nnet_7.3-11
[10] gtable_0.1.2 nlme_3.1-122 quantreg_5.19
[13] TH.data_1.0-6 latticeExtra_0.6-26 MatrixModels_0.4-1
[16] polspline_1.1.12 Matrix_1.2-3 gridExtra_2.0.0
[19] RColorBrewer_1.1-2 codetools_0.2-14 acepack_1.3-3.3
[22] rpart_4.1-10 sandwich_2.3-4 scales_0.3.0.9000
[25] mvtnorm_1.0-3 foreign_0.8-66 zoo_1.7-12
[28] proto_0.3-10
This is( ... er was) the crash log when done from the macGUI. When running from a Terminal window I get no error and the XQuartz/X11 window displays everything without problem.
I also tried renaming the .Rprofile file that loads all that other stuff to hide it from the GUI-launch process, and just loading with rgl and the base packages and it still crashes (i.e. the MacGUI window disappears and a crash report appears.)
Last minute update: I then installed the source version: rgl_0.95.1435.tar.gz and it loaded without complaint and executes the code in either session type:
In a Terminal window session with nothing in the .Rprofile:
install.packages("/Users/davidwinsemius/Downloads/rgl_0.95.1435.tar.gz", repo=NULL, dependencies=TRUE, type="source")
Then in MacGUI:
library(rgl)
spheres3d(0,0,0,front="lines",back="lines")
set.seed(101)
n <- 50
theta <- runif(n,0,2*pi)
u <- runif(n,-1,1)
x <- sqrt(1-u^2)*cos(theta)
y <- sqrt(1-u^2)*sin(theta)
z <- u
points3d(x,y,z,col="red")
I see that the compile process fails with a message:
----------------------
? checking files in ?vignettes? ... OK
? checking examples ... ERROR
Running examples in ?rgl-Ex.R? failed
The error most likely occurred in:
### Name: rgl.pixels ### Title: Extract pixel information from window ### Aliases: rgl.pixels ### Keywords: dynamic ### ** Examples example(surface3d)
srfc3d> # srfc3d> # volcano example taken from "persp" srfc3d> # srfc3d> srfc3d> data(volcano) srfc3d> z <- 2 * volcano # Exaggerate the relief ------------------- I tried running the contents of test/demo.R and got 21 different rgl windows, but no error. I was eventually able to find the offending code of : 'rgl-Ex.R' in the rgl.pixels.Rd file and copied and that code in a GUI session with no errors reported. So I guess the question is ... why is the build process for the Mavericks/Yosemite/El Capitan machines still failing to produce a current (working) version of rgl? --- snipped crash logs.
David Winsemius Alameda, CA, USA