CRAN Package Check Results for Package randPedPCA

Last updated on 2025-12-07 09:49:51 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1.3 9.32 122.00 131.32 OK
r-devel-linux-x86_64-debian-gcc 1.1.3 6.50 67.93 74.43 ERROR
r-devel-linux-x86_64-fedora-clang 1.1.3 26.00 175.09 201.09 OK
r-devel-linux-x86_64-fedora-gcc 1.1.3 20.00 187.11 207.11 OK
r-devel-windows-x86_64 1.1.3 10.00 122.00 132.00 OK
r-patched-linux-x86_64 1.1.3 8.85 125.19 134.04 OK
r-release-linux-x86_64 1.1.3 9.05 126.17 135.22 OK
r-release-macos-arm64 1.1.3 OK
r-release-macos-x86_64 1.1.3 21.00 154.00 175.00 OK
r-release-windows-x86_64 1.1.3 11.00 124.00 135.00 OK
r-oldrel-macos-arm64 1.1.3 OK
r-oldrel-macos-x86_64 1.1.3 20.00 149.00 169.00 OK
r-oldrel-windows-x86_64 1.1.3 13.00 170.00 183.00 OK

Check Details

Version: 1.1.3
Check: package dependencies
Result: WARN Cannot process vignettes Packages suggested but not available for checking: 'knitr', 'rmarkdown', 'rgl' VignetteBuilder package required for checking but not installed: ‘knitr’ Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.1.3
Check: examples
Result: ERROR Running examples in ‘randPedPCA-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: plot3D > ### Title: 3D plot using rgl > ### Aliases: plot3D > > ### ** Examples > > pc <- rppca(pedLInv) > plot3D(pc) Error: Package "rgl" must be installed to use this function. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.1.3
Check: tests
Result: ERROR Running ‘testthat.R’ [13s/15s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(randPedPCA) Loading required package: spam Spam version 2.11-1 (2025-01-20) is loaded. Type 'help( Spam)' or 'demo( spam)' for a short introduction and overview of this package. Help for individual functions is also obtained by adding the suffix '.spam' to the function name, e.g. 'help( chol.spam)'. Attaching package: 'spam' The following objects are masked from 'package:base': backsolve, forwardsolve Loading required package: Matrix Attaching package: 'Matrix' The following object is masked from 'package:spam': det Loading required package: pedigreeTools Loading required package: RSpectra > > test_check("randPedPCA") 'as(<dtTMatrix>, "dtCMatrix")' is deprecated. Use 'as(., "CsparseMatrix")' instead. See help("Deprecated") and help("Matrix-deprecated"). Downsampling to 1050 individuals. Subsetting colours using the individual index. Saving _problems/test_rppca-231.R Saving _problems/test_rppca-232.R Saving _problems/test_rppca-233.R Saving _problems/test_rppca-234.R Saving _problems/test_rppca-235.R Saving _problems/test_rppca-236.R Saving _problems/test_rppca-237.R Saving _problems/test_rppca-238.R Downsampling to 1050 individuals. Subsetting colours using the individual index. Saving _problems/test_rppca-260.R Saving _problems/test_rppca-261.R Saving _problems/test_rppca-262.R Saving _problems/test_rppca-263.R Saving _problems/test_rppca-264.R Saving _problems/test_rppca-265.R Saving _problems/test_rppca-266.R Saving _problems/test_rppca-267.R Saving _problems/test_rppca-268.R [ FAIL 17 | WARN 0 | SKIP 0 | PASS 80 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_rppca.R:231:3'): Plot3D ────────────────────────────────────── Expected `plot3D(pc, col = c("yellow", "green"))` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:232:3'): Plot3D ────────────────────────────────────── Expected `plot3D(pcNoV, col = c("yellow", "green"))` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:233:3'): Plot3D ────────────────────────────────────── Expected `plot3D(pc, col = 2)` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:234:3'): Plot3D ────────────────────────────────────── Expected `plot3D(pcNoV, col = 2)` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:235:3'): Plot3D ────────────────────────────────────── Expected `plot3D(pc, col = "grey")` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:236:3'): Plot3D ────────────────────────────────────── Expected `plot3D(pcNoV, col = "grey")` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:237:3'): Plot3D ────────────────────────────────────── Expected `plot3D(pc, col = as.numeric(factor(pedMeta$population)))` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:238:3'): Plot3D ────────────────────────────────────── Expected `plot3D(pcNoV, col = as.numeric(factor(pedMeta$population)))` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:260:3'): Axis labels 3D ────────────────────────────── Expected `plot3D(pc, col = c("yellow", "green"), xlab = "123", ylab = "456")` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:261:3'): Axis labels 3D ────────────────────────────── Expected `plot3D(pc, xlab = "123", ylab = "456")` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:262:3'): Axis labels 3D ────────────────────────────── Expected `plot3D(pcNoV, xlab = "123", ylab = "456")` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:263:3'): Axis labels 3D ────────────────────────────── Expected `plot3D(pc, col = 2, xlab = "123", ylab = "456")` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:264:3'): Axis labels 3D ────────────────────────────── Expected `plot3D(pcNoV, col = 2, xlab = "123", ylab = "456")` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:265:3'): Axis labels 3D ────────────────────────────── Expected `plot3D(pc, col = "grey", xlab = "123", ylab = "456")` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:266:3'): Axis labels 3D ────────────────────────────── Expected `plot3D(pcNoV, col = "grey", xlab = "123", ylab = "456")` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:267:3'): Axis labels 3D ────────────────────────────── Expected `plot3D(...)` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. ── Failure ('test_rppca.R:268:3'): Axis labels 3D ────────────────────────────── Expected `plot3D(...)` not to throw any conditions. Actually got a <simpleError> with message: Package "rgl" must be installed to use this function. [ FAIL 17 | WARN 0 | SKIP 0 | PASS 80 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.1.3
Check: package vignettes
Result: NOTE Package has ‘vignettes’ subdirectory but apparently no vignettes. Perhaps the ‘VignetteBuilder’ information is missing from the DESCRIPTION file? Flavor: r-devel-linux-x86_64-debian-gcc