Last updated on 2026-03-24 08:52:59 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.4 | 5.22 | 185.02 | 190.24 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.4 | 3.16 | 120.67 | 123.83 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.4 | 8.00 | 273.80 | 281.80 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.4 | 8.00 | 128.98 | 136.98 | ERROR | |
| r-devel-macos-arm64 | 1.0.4 | 1.00 | 49.00 | 50.00 | OK | |
| r-devel-windows-x86_64 | 1.0.4 | 8.00 | 188.00 | 196.00 | OK | |
| r-patched-linux-x86_64 | 1.0.4 | 4.33 | 167.39 | 171.72 | OK | |
| r-release-linux-x86_64 | 1.0.4 | 4.43 | 168.15 | 172.58 | OK | |
| r-release-macos-arm64 | 1.0.4 | OK | ||||
| r-release-macos-x86_64 | 1.0.4 | 3.00 | 125.00 | 128.00 | OK | |
| r-release-windows-x86_64 | 1.0.4 | 9.00 | 184.00 | 193.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.4 | OK | ||||
| r-oldrel-macos-x86_64 | 1.0.4 | 3.00 | 149.00 | 152.00 | OK | |
| r-oldrel-windows-x86_64 | 1.0.4 | 10.00 | 249.00 | 259.00 | OK |
Version: 1.0.4
Check: examples
Result: ERROR
Running examples in ‘statgenMPP-Ex.R’ failed
The error most likely occurred in:
> ### Name: selQTLMPP
> ### Title: Multi round genome scans for QTL detection
> ### Aliases: selQTLMPP
>
> ### ** Examples
>
> ## Read phenotypic data.
> pheno <- read.delim(system.file("extdata/multipop", "AxBxCpheno.txt",
+ package = "statgenMPP"))
> ## Rename first column to genotype.
> colnames(pheno)[1] <- "genotype"
>
>
> ## Compute IBD probabilities for simulated population - AxB, AxC.
> ABC <- calcIBDMPP(crossNames = c("AxB", "AxC"),
+ markerFiles = c(system.file("extdata/multipop", "AxB.txt",
+ package = "statgenMPP"),
+ system.file("extdata/multipop", "AxC.txt",
+ package = "statgenMPP")),
+ pheno = pheno,
+ popType = "F4DH",
+ mapFile = system.file("extdata/multipop", "mapfile.txt",
+ package = "statgenMPP"),
+ evalDist = 5)
>
> ## Single-QTL Mapping.
> ABC_SQM <- selQTLMPP(ABC, trait = "yield", maxCofactors = 0)
Error in loadNamespace(x) : there is no package called ‘Matrix’
Calls: selQTLMPP ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.0.4
Check: tests
Result: ERROR
Running ‘tinytest.R’ [12s/15s]
Running the tests in ‘tests/tinytest.R’ failed.
Complete output:
>
> if ( requireNamespace("tinytest", quietly=TRUE) ){
+ tinytest::test_package("statgenMPP")
+ }
Loading required package: statgenGWAS
test_calcIBDmpp.R............. 0 tests
test_calcIBDmpp.R............. 0 tests
test_calcIBDmpp.R............. 0 tests
test_calcIBDmpp.R............. 0 tests
test_calcIBDmpp.R............. 1 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 2 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 3 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 4 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 5 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 6 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 7 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 8 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 9 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 10 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 11 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 12 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 13 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 14 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 15 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 16 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 17 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 18 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 19 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 20 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 21 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 22 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 23 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 24 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 25 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 25 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 26 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 27 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 28 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 28 tests <1b>[0;32mOK<1b>[0m
test_calcIBDmpp.R............. 29 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m3.9s<1b>[0m
test_createGDataMPP.R......... 0 tests
test_createGDataMPP.R......... 0 tests
test_createGDataMPP.R......... 0 tests
test_createGDataMPP.R......... 0 tests
test_createGDataMPP.R......... 0 tests
test_createGDataMPP.R......... 0 tests
test_createGDataMPP.R......... 0 tests
test_createGDataMPP.R......... 1 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 2 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 3 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 4 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 4 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 5 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 6 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 6 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 6 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 6 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 7 tests <1b>[0;32mOK<1b>[0m
test_createGDataMPP.R......... 8 tests <1b>[0;32mOK<1b>[0m <1b>[0;34m0.8s<1b>[0m
test_createQTLmpp.R........... 0 tests
test_createQTLmpp.R........... 0 tests
test_createQTLmpp.R........... 0 tests
test_createQTLmpp.R........... 0 tests Error in loadNamespace(x) : there is no package called 'Matrix'
Calls: <Anonymous> ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.0.4
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘QTLMapping_in_MultiParentPopulations.Rmd’ using rmarkdown
Quitting from QTLMapping_in_MultiParentPopulations.Rmd:118-123 [ABCSQM]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `loadNamespace()`:
! there is no package called 'Matrix'
---
Backtrace:
▆
1. ├─statgenMPP::selQTLMPP(MPPobj = ABCMPP, trait = "yield", maxCofactors = 0)
2. │ └─statgenMPP:::randomQTLmodel(...)
3. │ └─LMMsolver::LMMsolve(...)
4. │ └─LMMsolver:::constructFixed(fixed, data)
5. └─base::loadNamespace(x)
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 'QTLMapping_in_MultiParentPopulations.Rmd' failed with diagnostics:
there is no package called 'Matrix'
--- failed re-building ‘QTLMapping_in_MultiParentPopulations.Rmd’
SUMMARY: processing the following file failed:
‘QTLMapping_in_MultiParentPopulations.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc