Last updated on 2026-02-25 07:51:34 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.1 | 19.87 | 120.72 | 140.59 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.1 | 13.43 | 81.95 | 95.38 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.1 | 40.00 | 184.41 | 224.41 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.1 | 35.00 | 188.42 | 223.42 | OK | |
| r-devel-macos-arm64 | 1.0.1 | 4.00 | 35.00 | 39.00 | OK | |
| r-devel-windows-x86_64 | 1.0.1 | 26.00 | 144.00 | 170.00 | OK | |
| r-patched-linux-x86_64 | 1.0.1 | OK | ||||
| r-release-linux-x86_64 | 1.0.1 | 18.48 | 108.63 | 127.11 | OK | |
| r-release-macos-arm64 | 1.0.1 | OK | ||||
| r-release-macos-x86_64 | 1.0.1 | 12.00 | 126.00 | 138.00 | OK | |
| r-release-windows-x86_64 | 1.0.1 | 24.00 | 143.00 | 167.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.1 | OK | ||||
| r-oldrel-macos-x86_64 | 1.0.1 | 15.00 | 96.00 | 111.00 | OK | |
| r-oldrel-windows-x86_64 | 1.0.1 | 31.00 | 178.00 | 209.00 | ERROR |
Version: 1.0.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'hsrecombi_workflow.Rmd' using rmarkdown
Quitting from hsrecombi_workflow.Rmd:136-166 [recombination-rate]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `{
map <- read.table(file.path(path.dat, paste0("map_chr", chr, ".map")),
col.names = c("Chr", "SNP", "locus_Mb", "locus_bp"))
genomatrix <- data.table::fread(file.path(path.dat, paste0(
"hsphase_input_chr", chr, ".raw")))
X <- as.matrix(genomatrix[, -c(1:6)])
X[is.na(X)] <- 9
daughterSire <- genomatrix$PAT
hap <- makehappm(unique(daughterSire), daughterSire, X)
save("hap", file = file.path(path.res, paste0("hsphase_output_chr", chr,
".Rdata")))
io <- sapply(1:nrow(map), function(z) {
grepl(x = colnames(X)[z], pattern = map$SNP[z])
})
if (sum(io) != nrow(map)) stop("ERROR in dimension")
res <- hsrecombi(hap, X)
final <- editraw(res, map)
save(list = c("final", "map"), file = file.path(path.res, paste0(
"Results_chr", chr, ".Rdata")))
ifelse(nrow(final) > 0, "OK", "no result")
}`:
! task 1 failed - "argument is of length zero"
---
Backtrace:
▆
1. └─foreach(chr = 1:nchr, .packages = "hsrecombi") %dopar% ...
2. └─e$fun(obj, substitute(ex), parent.frame(), e$data)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'hsrecombi_workflow.Rmd' failed with diagnostics:
task 1 failed - "argument is of length zero"
--- failed re-building 'hsrecombi_workflow.Rmd'
SUMMARY: processing the following file failed:
'hsrecombi_workflow.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-windows-x86_64