Last updated on 2026-03-09 17:50:17 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.4-0 | 10.74 | 1577.88 | 1588.62 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.4-1 | 8.19 | 977.90 | 986.09 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.4-1 | 21.00 | 2583.68 | 2604.68 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.4-1 | 19.00 | 2170.25 | 2189.25 | ERROR | |
| r-devel-macos-arm64 | 1.4-1 | 3.00 | 380.00 | 383.00 | OK | |
| r-devel-windows-x86_64 | 1.4-0 | 14.00 | 719.00 | 733.00 | OK | --no-vignettes |
| r-patched-linux-x86_64 | 1.4-0 | 11.22 | 1370.98 | 1382.20 | OK | |
| r-release-linux-x86_64 | 1.4-0 | 11.91 | 1327.62 | 1339.53 | ERROR | |
| r-release-macos-arm64 | 1.4-1 | 3.00 | 344.00 | 347.00 | OK | |
| r-release-macos-x86_64 | 1.4-0 | 8.00 | 1743.00 | 1751.00 | OK | |
| r-release-windows-x86_64 | 1.4-0 | 13.00 | 373.00 | 386.00 | OK | --no-vignettes |
| r-oldrel-macos-arm64 | 1.4-1 | 3.00 | 357.00 | 360.00 | OK | |
| r-oldrel-macos-x86_64 | 1.4-0 | 8.00 | 1500.00 | 1508.00 | OK | |
| r-oldrel-windows-x86_64 | 1.4-1 | 16.00 | 443.00 | 459.00 | OK |
Version: 1.4-1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘NAMI.Rnw’ using knitr
--- finished re-building ‘NAMI.Rnw’
--- re-building ‘mtram.Rnw’ using knitr
--- finished re-building ‘mtram.Rnw’
+-+mtram.pdf
*** caught segfault ***
address 0x2070, cause 'memory not mapped'
An irrecoverable exception occurred. R is aborting now ...
--- re-building ‘survtram.Rnw’ using knitr
Warning in doTryCatch(return(expr), name, parentenv, handler) :
semi-transparency is not supported on this device: reported only once per page
Warning in doTryCatch(return(expr), name, parentenv, handler) :
semi-transparency is not supported on this device: reported only once per page
Warning in doTryCatch(return(expr), name, parentenv, handler) :
semi-transparency is not supported on this device: reported only once per page
--- finished re-building ‘survtram.Rnw’
--- re-building ‘tram.Rnw’ using knitr
--- finished re-building ‘tram.Rnw’
SUMMARY: processing the following file failed:
‘mtram.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.4-0
Check: Rd files
Result: WARN
prepare_Rd: ./man/Aareg.Rd:55: unknown macro '\bibcitet'
prepare_Rd: ./man/Aareg.Rd:56: unknown macro '\bibcitet'
checkRd: (-1) Aareg.Rd:55: Lost braces
55 | can be found in \bibcitet{tram::Hothorn:Moest:Buehlmann:2017} and
| ^
checkRd: (-1) Aareg.Rd:56: Lost braces
56 | \bibcitet{tram::Hothorn:2018}.
| ^
prepare_Rd: ./man/BoxCox.Rd:46: unknown macro '\bibcitep'
prepare_Rd: ./man/BoxCox.Rd:54: unknown macro '\bibcitet'
prepare_Rd: ./man/BoxCox.Rd:55: unknown macro '\bibcitet'
checkRd: (-1) BoxCox.Rd:46: Lost braces
46 | This is similar to a Box-Cox transformation \bibcitep{tram::BoxCox:1964}, but the technical details
| ^
checkRd: (-1) BoxCox.Rd:54: Lost braces
54 | can be found in \bibcitet{tram::Hothorn:Moest:Buehlmann:2017} and
| ^
checkRd: (-1) BoxCox.Rd:55: Lost braces
55 | \bibcitet{tram::Hothorn:2018}.
| ^
prepare_Rd: ./man/Colr.Rd:58: unknown macro '\bibcitet'
prepare_Rd: ./man/Colr.Rd:59: unknown macro '\bibcitet'
checkRd: (-1) Colr.Rd:58: Lost braces
58 | \bibcitet{tram::Lohse:Rohrmann:Faeh:2017} and
| ^
checkRd: (-1) Colr.Rd:59: Lost braces
59 | \bibcitet{tram::Hothorn:Moest:Buehlmann:2017}.
| ^
prepare_Rd: ./man/Compris.Rd:77: unknown macro '\bibcitet'
prepare_Rd: ./man/Compris.Rd:78: unknown macro '\bibcitet'
prepare_Rd: ./man/Compris.Rd:79: unknown macro '\bibcitet'
checkRd: (-1) Compris.Rd:77: Lost braces
77 | regression framework described by \bibcitet{tram::Czado:Keilegom:2022} and
| ^
checkRd: (-1) Compris.Rd:78: Lost braces
78 | \bibcitet{tram::Deresa:Keilegom:2023}, the implementation here is discussed
| ^
checkRd: (-1) Compris.Rd:79: Lost braces
79 | in \bibcitet{tram::Siegfried:Tamasi:Hothorn:2026}.
| ^
prepare_Rd: ./man/Coxph.Rd:52: unknown macro '\bibcitet'
prepare_Rd: ./man/Coxph.Rd:62: unknown macro '\bibcitet'
prepare_Rd: ./man/Coxph.Rd:63: unknown macro '\bibcitet'
prepare_Rd: ./man/Coxph.Rd:64: unknown macro '\bibcitet'
checkRd: (-1) Coxph.Rd:52: Lost braces
52 | \bibcitet{tram::McLain:Ghosh:2013}.
| ^
checkRd: (-1) Coxph.Rd:62: Lost braces
62 | can be found in \bibcitet{tram::Hothorn:Moest:Buehlmann:2017},
| ^
checkRd: (-1) Coxph.Rd:63: Lost braces
63 | \bibcitet{tram::Siegfried:Tamasi:Hothorn:2026}, and
| ^
checkRd: (-1) Coxph.Rd:64: Lost braces
64 | \bibcitet{tram::Hothorn:2018}.
| ^
prepare_Rd: ./man/Lehmann.Rd:44: unknown macro '\bibcitet'
checkRd: (-1) Lehmann.Rd:44: Lost braces
44 | This transformation model, introduced by \bibcitet{tram::Lehmann:1953}, uses the cumulative distribution function for the
| ^
prepare_Rd: ./man/Lm.Rd:60: unknown macro '\bibcitet'
prepare_Rd: ./man/Lm.Rd:61: unknown macro '\bibcitet'
checkRd: (-1) Lm.Rd:60: Lost braces
60 | can be found in \bibcitet{tram::Hothorn:Moest:Buehlmann:2017} and
| ^
checkRd: (-1) Lm.Rd:61: Lost braces
61 | \bibcitet{tram::Hothorn:2018}.
| ^
prepare_Rd: ./man/Polr.Rd:60: unknown macro '\bibcitet'
prepare_Rd: ./man/Polr.Rd:61: unknown macro '\bibcitet'
checkRd: (-1) Polr.Rd:60: Lost braces
60 | can be found in \bibcitet{tram::Hothorn:Moest:Buehlmann:2017} and
| ^
checkRd: (-1) Polr.Rd:61: Lost braces
61 | \bibcitet{tram::Hothorn:2018}.
| ^
prepare_Rd: ./man/Survreg.Rd:66: unknown macro '\bibcitet'
prepare_Rd: ./man/Survreg.Rd:67: unknown macro '\bibcitet'
prepare_Rd: ./man/Survreg.Rd:68: unknown macro '\bibcitet'
checkRd: (-1) Survreg.Rd:66: Lost braces
66 | can be found in \bibcitet{tram::Hothorn:Moest:Buehlmann:2017},
| ^
checkRd: (-1) Survreg.Rd:67: Lost braces
67 | \bibcitet{tram::Siegfried:Tamasi:Hothorn:2026}, and
| ^
checkRd: (-1) Survreg.Rd:68: Lost braces
68 | \bibcitet{tram::Hothorn:2018}.
| ^
prepare_Rd: ./man/mmlt.Rd:29: unknown macro '\bibcitet'
prepare_Rd: ./man/mmlt.Rd:31: unknown macro '\bibcitet'
prepare_Rd: ./man/mmlt.Rd:59: unknown macro '\bibcitet'
checkRd: (-1) mmlt.Rd:29: Lost braces
29 | described by \bibcitet{tram::Klein:Hothorn:Barbanti:2020}. If \code{FALSE}, parameters can be
| ^
checkRd: (-1) mmlt.Rd:31: Lost braces
31 | \bibcitet{tram::Klein:Hothorn:Barbanti:2020}. Using \code{conditional = FALSE} with probit-only models
| ^
checkRd: (-1) mmlt.Rd:59: Lost braces
59 | as described by \bibcitet{tram::Klein:Hothorn:Barbanti:2020}.
| ^
prepare_Rd: ./man/mtram.Rd:43: unknown macro '\bibcitet'
checkRd: (-1) mtram.Rd:43: Lost braces
43 | \bibcitet{tram::Barbanti:Hothorn:2023} and examples are given in the \code{mtram} package vignette.
| ^
prepare_Rd: ./man/robust_score_test.Rd:60: unknown macro '\bibcitet'
checkRd: (-1) robust_score_test.Rd:60: Lost braces
60 | see \bibcitet{tram::Kook:Saengkyongam:Lundborg:2024}.
| ^
prepare_Rd: ./man/score_test.Rd:45: unknown macro '\bibcitet'
checkRd: (-1) score_test.Rd:45: Lost braces
45 | Model scores are available from \bibcitet{tram::Hothorn:Moest:Buehlmann:2017}.
| ^
prepare_Rd: ./man/tram-methods.Rd:161: unknown macro '\bibcitet'
checkRd: (-1) tram-methods.Rd:161: Lost braces
161 | \bibcitet{tram::Sewak:Hothorn:2023}.
| ^
prepare_Rd: ./man/tram.Rd:156: unknown macro '\bibcitet'
prepare_Rd: ./man/tram.Rd:158: unknown macro '\bibcitet'
prepare_Rd: ./man/tram.Rd:159: unknown macro '\bibcitet'
checkRd: (-1) tram.Rd:156: Lost braces
156 | is presented in \bibcitet{tram::Hothorn:Moest:Buehlmann:2017}, computational
| ^
checkRd: (-1) tram.Rd:158: Lost braces
158 | are discussed by \bibcitet{Hothorn:2018}. Location-scale transformation
| ^
checkRd: (-1) tram.Rd:159: Lost braces
159 | models have been introduced by \bibcitet{tram::Siegfried:Kook:Hothorn:2023}.
| ^
Flavor: r-release-linux-x86_64
Version: 1.4-0
Check: tests
Result: ERROR
Running ‘Coxph-Ex.R’ [10s/13s]
Comparing ‘Coxph-Ex.Rout’ to ‘Coxph-Ex.Rout.save’ ... OK
Running ‘KaplanMeier-Ex.R’ [2s/3s]
Running ‘PI_OVL-Ex.R’ [4s/5s]
Running ‘Polr-Ex.R’ [10s/12s]
Comparing ‘Polr-Ex.Rout’ to ‘Polr-Ex.Rout.save’ ... OK
Running ‘Survreg-Ex.R’ [4s/5s]
Comparing ‘Survreg-Ex.Rout’ to ‘Survreg-Ex.Rout.save’ ... OK
Running ‘bugfixes.R’ [71s/87s]
Running ‘intercepts-Ex.R’ [4s/5s]
Comparing ‘intercepts-Ex.Rout’ to ‘intercepts-Ex.Rout.save’ ... OK
Running ‘mmlt-Ex.R’ [144s/191s]
Comparing ‘mmlt-Ex.Rout’ to ‘mmlt-Ex.Rout.save’ ...931c931
< [1] "Mean relative difference: 3.3"
---
> [1] TRUE
Running ‘mmlt-interface.R’ [9s/12s]
Running ‘mtram-Ex.R’ [10s/12s]
Comparing ‘mtram-Ex.Rout’ to ‘mtram-Ex.Rout.save’ ...63,64d62
< attr(,"class")
< [1] "vcmat_us" "matrix" "array"
Running ‘stram-Ex.R’ [27s/35s]
Comparing ‘stram-Ex.Rout’ to ‘stram-Ex.Rout.save’ ... OK
Running the tests in ‘tests/mmlt-interface.R’ failed.
Complete output:
>
> library("tram")
Loading required package: mlt
Loading required package: basefun
Loading required package: variables
Loading required package: mvtnorm
> library("survival")
> library("sandwich")
> library("numDeriv")
> library("mvtnorm")
>
> ### check mmlt for wild model combinations and weights
>
> set.seed(290875)
>
> chk <- function(x, y, tol = 1e-2) stopifnot(all.equal(x, y, tol = tol))
>
> N <- 100
> J <- 3
>
> ### weights
> w <- as.double(sample(0:5, size = N, replace = TRUE))
> ### X1, X2, X3 correlated
> z <- matrix(rnorm(N * J), nrow = J)
> L <- ltMatrices(runif(J * (J - 1) / 2))
> y <- t(solve(standardize(L), z))
> ### uncorrelated ordered
> x <- sample(gl(5, N / 5, ordered = TRUE))
> ### X3 right censored
> e <- sample(c(TRUE, FALSE), size = N, replace = TRUE)
> X3 <- exp(y[,3])
> X3 <- Surv(X3, event = e)
> d <- data.frame(y[,1:2], X3, x, e)
> dw <- d[rep(1:nrow(d), w),,drop = FALSE]
> idx <- sample(1:N, size = N / 2)
>
> ### global options (speed-up estimation)
> M <- 200
> args <- list(type = "ghalton", M = M)
> op <- mltoptim() ### no hessian
>
> ### marginal models (use Lm to reduce number of parameters)
> m1 <- Lm(X1 ~ 1, data = d)
> m2 <- Lm(X2 ~ 1, data = d)
> m3 <- Lm(X3 ~ 1, data = d)
> m4 <- Polr(x ~ 1, data = d, method = "probit")
>
> ### joint distribution of X1, X2 (continuous), X3 (continuous and
> ### right-censored) and x (discrete)
> m <- mmlt(m1, m2, m3, m4, data = d, args = args, optim = op)
> l1 <- logLik(m)
> ## check gradient
> s1 <- -colSums(estfun(m))
> s2 <- grad(function(parm) logLik(m, parm = parm), coef(m))
> chk(s2, unname(s1))
> L1 <- aperm(coef(m, type = "Lambda"), perm = c("X1", "X2", "X3", "x"))
Error in aperm.ltMatrices(coef(m, type = "Lambda"), perm = c("X1", "X2", :
Cannot permute objects of class ltMatrices,
consider calling as.chol() or as.invchol() first
Calls: aperm -> aperm.ltMatrices
Execution halted
Flavor: r-release-linux-x86_64