Last updated on 2026-03-24 08:52:59 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.11 | 10.16 | 211.03 | 221.19 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.11 | 6.61 | 159.72 | 166.33 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.11 | 17.00 | 328.49 | 345.49 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.11 | 15.00 | 201.11 | 216.11 | ERROR | |
| r-devel-macos-arm64 | 1.0.11 | 2.00 | 51.00 | 53.00 | OK | |
| r-devel-windows-x86_64 | 1.0.11 | 12.00 | 210.00 | 222.00 | OK | |
| r-patched-linux-x86_64 | 1.0.11 | 10.41 | 199.81 | 210.22 | OK | |
| r-release-linux-x86_64 | 1.0.11 | 7.82 | 198.12 | 205.94 | OK | |
| r-release-macos-arm64 | 1.0.11 | OK | ||||
| r-release-macos-x86_64 | 1.0.11 | 7.00 | 293.00 | 300.00 | OK | |
| r-release-windows-x86_64 | 1.0.11 | 12.00 | 205.00 | 217.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.11 | NOTE | ||||
| r-oldrel-macos-x86_64 | 1.0.11 | 6.00 | 287.00 | 293.00 | NOTE | |
| r-oldrel-windows-x86_64 | 1.0.11 | 17.00 | 275.00 | 292.00 | NOTE |
Version: 1.0.11
Check: examples
Result: ERROR
Running examples in ‘statgenGxE-Ex.R’ failed
The error most likely occurred in:
> ### Name: diagnostics
> ### Title: Get diagnostics for an object of class varComp
> ### Aliases: diagnostics
>
> ### ** Examples
>
> ## Fit a mixed model.
> geVarComp <- gxeVarComp(TD = TDMaize, trait = "yld")
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
there is no package called ‘Matrix’
Calls: gxeVarComp ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.0.11
Check: tests
Result: ERROR
Running ‘testthat.R’ [56s/73s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(statgenGxE)
>
> test_check("statgenGxE")
Saving _problems/test-gxeMegaEnv-69.R
Saving _problems/test-gxeMegaEnv-71.R
Saving _problems/test-gxeMegaEnv-97.R
Saving _problems/test-gxeMegaEnv-99.R
Saving _problems/test-plots-438.R
Saving _problems/test-plots-441.R
Saving _problems/test-plots-449.R
[ FAIL 7 | WARN 3 | SKIP 13 | PASS 381 ]
══ Skipped tests (13) ══════════════════════════════════════════════════════════
• On CRAN (6): 'test-gxeMegaEnv.R:72:3', 'test-gxeMegaEnv.R:103:3',
'test-report.R:7:3', 'test-report.R:21:3', 'test-report.R:31:3',
'test-report.R:41:3'
• {Matrix} is not installed. (7): 'test-gxeVarComp.R:14:1',
'test-gxeVarCov.R:12:1', 'test-plots.R:412:3', 'test-plots.R:425:3',
'test-plots.R:454:1', 'test-summaries.R:44:3', 'test-summaries.R:67:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-gxeMegaEnv.R:68:3'): predict.megaEnv functions correctly ─────
Expected `geTabLm$predictedValue[1, ]` to be equivalent to `c(79.2407761061078, 79.4858110738655)`.
Component 1: target is logical, current is numeric
Component 2: target is logical, current is numeric
── Failure ('test-gxeMegaEnv.R:70:3'): predict.megaEnv functions correctly ─────
Expected `geTabLm$standardError[1, ]` to be equivalent to `c(6.83087991095342, 6.38912904851271)`.
Component 1: target is logical, current is numeric
Component 2: target is logical, current is numeric
── Failure ('test-gxeMegaEnv.R:96:3'): option year in gxeTable functions properly ──
Expected `megaEnvPred$predictedValue[1, ]` to be equivalent to `c(75.7340426279225, 72.8307799806527)`.
Component 1: target is logical, current is numeric
Component 2: target is logical, current is numeric
── Failure ('test-gxeMegaEnv.R:98:3'): option year in gxeTable functions properly ──
Expected `megaEnvPred$standardError[1, ]` to be equivalent to `c(5.69948967193805, 7.83055991157765)`.
Component 1: target is logical, current is numeric
Component 2: target is logical, current is numeric
── Failure ('test-plots.R:438:3'): megaEnv plot gives correct output types ─────
Expected `p[[1]]` to inherit from "character".
Actual inheritance: "NULL"
── Failure ('test-plots.R:441:3'): megaEnv plot gives correct output types ─────
Expected `nrow(layout[grepl(pattern = "pane", x = layout[["name"]]), ])` to equal 4.
Differences:
target is NULL, current is numeric
── Failure ('test-plots.R:449:3'): option colorGenoBy in megaEnv plot functions correctly ──
Expected `gbRight$layout[["name"]]` to equal `c("guides", "legend.box.background")`.
Differences:
target is NULL, current is character
[ FAIL 7 | WARN 3 | SKIP 13 | PASS 381 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.0.11
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘statgenGxE.Rmd’ using rmarkdown
Quitting from statgenGxE.Rmd:141-145 [geVarComp]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `loadNamespace()`:
! there is no package called 'Matrix'
---
Backtrace:
▆
1. ├─statgenGxE::gxeVarComp(TD = dropsTD, trait = "grain.yield", nestingFactor = "scenarioFull")
2. └─base::loadNamespace(x)
3. ├─base::namespaceImportFrom(...)
4. │ └─base::asNamespace(ns)
5. └─base::loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]])
6. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
7. └─base (local) withOneRestart(expr, restarts[[1L]])
8. └─base (local) doWithOneRestart(return(expr), restart)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'statgenGxE.Rmd' failed with diagnostics:
there is no package called 'Matrix'
--- failed re-building ‘statgenGxE.Rmd’
SUMMARY: processing the following file failed:
‘statgenGxE.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.0.11
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘asreml’
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64