David Winsemius
2015-Dec-31 02:28 UTC
[R] (old) rgl package crashes MacGUI using R 3.2.3 in El Cap, new compiled one does not.
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
David Winsemius
2015-Dec-31 02:40 UTC
[R] (old) rgl package crashes MacGUI using R 3.2.3 in El Cap, new compiled one does not.
Apologies.... I meant to send this to R-SIG-MAC. Please ignore or respond over there.> On Dec 30, 2015, at 6:28 PM, David Winsemius <dwinsemius at comcast.net> wrote: > > 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.snipped David Winsemius Alameda, CA, USA