- using R version 4.4.0 alpha (2024-03-31 r86238)
- using platform: aarch64-apple-darwin20
- R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 12.2.0
- running under: macOS Ventura 13.4
- using session charset: UTF-8
- checking for file ‘doolkit/DESCRIPTION’ ... OK
- this is package ‘doolkit’ version ‘1.42.2’
- package encoding: UTF-8
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking for hidden files and directories ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking whether package ‘doolkit’ can be installed ... [7s/8s] OK
See the install log for details.
- checking installed package size ... NOTE
installed size is 6.5Mb
sub-directories of 1Mb or more:
R 2.1Mb
data 2.0Mb
extdata 2.3Mb
- checking package directory ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking for left-over files ... OK
- checking index information ... OK
- checking package subdirectories ... OK
- checking code files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... [1s/1s] OK
- checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
- checking whether the package can be unloaded cleanly ... [1s/1s] OK
- checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
- checking whether the namespace can be unloaded cleanly ... [1s/1s] OK
- checking loading without being on the library search path ... [1s/2s] OK
- checking dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... OK
- checking R code for possible problems ... [4s/4s] OK
- checking Rd files ... [0s/0s] NOTE
checkRd: (-1) dkprofile.Rd:64: Lost braces
64 | \doi{10.3389/fphys.2017.00524}{Thiery et al. (2017)}
| ^
checkRd: (-1) dne.Rd:45: Lost braces
45 | \doi{10.1002/ajpa.21489}{Bunn et al. (2011)}
| ^
checkRd: (-1) dne.Rd:47: Lost braces
47 | \doi{10.1007/s10914-016-9326-0}{Pampush et al. (2016)}
| ^
checkRd: (-1) inclin.Rd:28: Lost braces
28 | \doi{10.1371/journal.pone.0066142}{Guy et al. (2013)}
| ^
checkRd: (-1) oedist.Rd:43: Lost braces
43 | \doi{10.1371/journal.pone.0066142}{Guy et al. (2013)}
| ^
checkRd: (-1) oedist.Rd:45: Lost braces
45 | \doi{10.1371/journal.pone.0138802}{Guy et al. (2015)}
| ^
checkRd: (-1) oedist.Rd:47: Lost braces
47 | \doi{10.3389/fphys.2017.00524}{Thiery et al. (2017)}
| ^
checkRd: (-1) oedist.Rd:49: Lost braces
49 | \doi{10.1098/rsbl.2019.0671}{Schwartz et al. (2020)}
| ^
checkRd: (-1) opc.Rd:36: Lost braces
36 | \doi{10.1038/nature05433}{Evans et al. (2007)}
| ^
checkRd: (-1) opcr.Rd:30: Lost braces
30 | \doi{10.1038/nature10880}{Wilson et al. (2012)}
| ^
checkRd: (-1) rfi.Rd:34: Lost braces
34 | \doi{10.1016/j.jhevol.2008.08.002}{Boyer (2008)}
| ^
checkRd: (-1) rfi.Rd:35: Lost braces
35 | \doi{10.1371/journal.pone.0066142}{Guy et al. (2013)}
| ^
checkRd: (-1) rrate.Rd:34: Lost braces
34 | \doi{10.1002/ajpa.23916}{Thiery et al. (2019)}
| ^
checkRd: (-1) shape.index.Rd:44: Lost braces
44 | \doi{10.1029/TR013i001p00350}{Horton (1932)}
| ^
checkRd: (-1) shape.index.Rd:46: Lost braces
46 | \doi{10.1130/0016-7606(1956)67[597:EODSAS]2.0.CO;2}{Schumm (1956)}
| ^
checkRd: (-1) shape.index.Rd:48: Lost braces
48 | \doi{10.2475/ajs.255.2.138}{Chorley et al. (1957)}
| ^
- checking Rd metadata ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... OK
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking contents of ‘data’ directory ... OK
- checking data for non-ASCII characters ... [0s/0s] OK
- checking LazyData ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking examples ... [4s/3s] ERROR
Running examples in ‘doolkit-Ex.R’ failed
The error most likely occurred in:
> ### Name: dkborder
> ### Title: dkborder
> ### Aliases: dkborder
>
> ### ** Examples
>
> border <- dkborder(dkmodel$cusp)
>
> # Map the border in orange:
> is_border <- rep(1, Rvcg::nfaces(dkmodel$cusp))
> is_border[border] <- 2
> dkmap(dkmodel$cusp, is_border, col = c("white", "#E69F00"), col.levels = 2, legend = FALSE,
+ scalebar = FALSE, smooth = FALSE)
Warning in normalizePath(texture) :
path[1]="/var/folders/k4/0jwzxmln0nb8y6rkzprptb640000gq/T//RtmpVZL5EK/file7ab930bbc064.png": No such file or directory
Warning in rgl.material0(color = "white", alpha = 1, lit = FALSE, ambient = "#000000", :
RGL: Pixmap load: unable to open file '/var/folders/k4/0jwzxmln0nb8y6rkzprptb640000gq/T//RtmpVZL5EK/file7ab930bbc064.png' for reading
>
> # Compare with vcgBorder from the R package Rvcg, in blue:
> vcgborder <- which(Rvcg::vcgBorder(dkmodel$cusp)$borderit == TRUE)
> is_border[vcgborder] <- 3
> dkmap(dkmodel$cusp, is_border, col = c("white", "#E69F00", "#56B4E9"), col.levels = 3,
+ legend = FALSE, scalebar = FALSE, smooth = FALSE)
- checking PDF version of manual ... [4s/4s] OK
- DONE
Status: 1 ERROR, 2 NOTEs
- using check arguments '--no-clean-on-error '