Last updated on 2026-03-11 01:54:15 CET.
| Package | ERROR | WARN | NOTE | OK |
|---|---|---|---|---|
| ATR | 14 | |||
| basefun | 1 | 13 | ||
| coin | 14 | |||
| exactRankTests | 1 | 3 | 10 | |
| HSAUR | 14 | |||
| HSAUR2 | 14 | |||
| HSAUR3 | 14 | |||
| inum | 14 | |||
| ipred | 14 | |||
| libcoin | 2 | 1 | 11 | |
| maxstat | 14 | |||
| mboost | 14 | |||
| mlt | 1 | 13 | ||
| mlt.docreg | 2 | 12 | ||
| modeltools | 14 | |||
| multcomp | 14 | |||
| MVA | 14 | |||
| mvtnorm | 14 | |||
| party | 14 | |||
| partykit | 1 | 2 | 11 | |
| tbm | 2 | 12 | ||
| TH.data | 3 | 11 | ||
| tram | 2 | 1 | 11 | |
| trtf | 14 | |||
| variables | 14 |
Current CRAN status: OK: 14
Current CRAN status: WARN: 1, OK: 13
Version: 1.2-6
Check: Rd files
Result: WARN
prepare_Rd: ./man/Bernstein_basis.Rd:35: unknown macro '\bibcitet'
checkRd: (-1) Bernstein_basis.Rd:35: Lost braces
35 | methods for polynomials in Bernstein form, see \bibcitet{basefun::Farouki_2012}.
| ^
prepare_Rd: ./man/Legendre_basis.Rd:22: unknown macro '\bibcitet'
checkRd: (-1) Legendre_basis.Rd:22: Lost braces
22 | methods for Legendre polynomials, see \bibcitet{basefun::Farouki_2012}.
| ^
prepare_Rd: ./man/basefun-package.Rd:12: unknown macro '\bibcitep'
checkRd: (-1) basefun-package.Rd:12: Lost braces
12 | package \bibcitep{basefun::Hothorn:2018}
| ^
prepare_Rd: ./man/cyclic_basis.Rd:19: unknown macro '\bibcitet'
checkRd: (-1) cyclic_basis.Rd:19: Lost braces
19 | modelling seasonal effects, see \bibcitet{basefun::Held_Paul_2012}, Section 2.2.
| ^
prepare_Rd: ./man/predict.Rd:32: unknown macro '\bibcitep'
checkRd: (-1) predict.Rd:32: Lost braces
32 | \bibcitep{basefun::Currie_Durban_Eilers_2006} to compute the corresponding predictions efficiently.
| ^
Flavor: r-release-linux-x86_64
Current CRAN status: OK: 14
Current CRAN status: ERROR: 1, NOTE: 3, OK: 10
Version: 0.8-35
Check: tests
Result: ERROR
Running ‘bugfix-tests.R’ [0s/1s]
Comparing ‘bugfix-tests.Rout’ to ‘bugfix-tests.Rout.save’ ... OK
Running ‘dtest.R’ [1s/2s]
Running ‘reg-tests.R’ [0s/1s]
Running ‘stest.R’ [2s/3s]
Running the tests in ‘tests/reg-tests.R’ failed.
Complete output:
>
> require("exactRankTests")
Loading required package: exactRankTests
Package 'exactRankTests' is no longer under development.
Please consider using package 'coin' instead.
> suppressWarnings(RNGversion("3.5.3"))
> set.seed(29081975)
>
> #
> # Regression tests
> #
>
> # Blood Pressure data: Results from StatXact 5 (demo version)
>
> data(bloodp)
> # bloodp$group <- factor(c(rep("Behandlung", 4), rep("Kontrolle", 11)))
>
> we <- wilcox.exact(bp ~ group, data=bloodp, conf.int=TRUE)
> we
Exact Wilcoxon rank sum test
data: bp by group
W = 35, p-value = 0.0989
alternative hypothesis: true mu is not equal to 0
95 percent confidence interval:
-4 22
sample estimates:
difference in location
9.5
> stopifnot(round(we$p.value,4) == 0.0989)
> stopifnot(we$conf.int[1] == -4)
> stopifnot(we$conf.int[2] == 22)
> stopifnot(we$conf.estimate == 9.5)
>
> we <- wilcox.exact(bp ~ group, data=bloodp, conf.int=TRUE, exact=FALSE)
> we
Asymptotic Wilcoxon rank sum test
data: bp by group
W = 35, p-value = 0.08535
alternative hypothesis: true mu is not equal to 0
95 percent confidence interval:
-4.143776e-05 2.000007e+01
sample estimates:
difference in location
9.790799
> stopifnot(round(we$p.value,4) == 0.0853)
>
> we <- wilcox.exact(bp ~ group, data=bloodp, alternative="greater", conf.int=TRUE)
> stopifnot(round(we$p.value,4) == 0.0542)
>
>
> pt <- perm.test(bp ~ group, data=bloodp)
> pt
2-sample Permutation Test
data: bp by group
T = 402, p-value = 0.104
alternative hypothesis: true mu is not equal to 0
> stopifnot(round(pt$p.value, 4) == 0.1040)
>
> pt <- perm.test(bp ~ group, data=bloodp, alternative="greater")
> pt
2-sample Permutation Test
data: bp by group
T = 402, p-value = 0.05641
alternative hypothesis: true mu is greater than 0
> stopifnot(round(pt$p.value, 4) == 0.0564)
>
> pt <- perm.test(bp ~ group, data=bloodp, exact=FALSE)
> pt
Asymptotic 2-sample Permutation Test
data: bp by group
T = 402, p-value = 0.107
alternative hypothesis: true mu is not equal to 0
> stopifnot(round(pt$p.value, 4) == 0.1070)
>
> sc <- cscores(bloodp$bp, type="NormalQuantile")
> X <- sum(sc[bloodp$group == "group2"])
> stopifnot(round(pperm(X, sc, 11), 4) == 0.0462)
> stopifnot(round(pperm(X, sc, 11, alternative="two.sided"), 4) == 0.0799)
>
> # use scores mapped into integers
>
> sc <- cscores(bloodp$bp, type="NormalQuantile", int=TRUE)
> X <- sum(sc[bloodp$group == "group2"])
> stopifnot(round(pperm(X, sc, 11), 4) == 0.0462)
> stopifnot(round(pperm(X, sc, 11, alternative="two.sided"), 4) == 0.0799)
>
> # Equality of wilcox.test in package ctest and wilcox.exact
>
> x <- c(1.83, 0.50, 1.62, 2.48, 1.68, 1.88, 1.55, 3.06, 1.30)
> y <- c(0.878, 0.647, 0.598, 2.05, 1.06, 1.29, 1.06, 3.14, 1.29)
>
> wt <- wilcox.test(y-x)
> we <- wilcox.exact(y -x)
> wt
Wilcoxon signed rank exact test
data: y - x
V = 5, p-value = 0.03906
alternative hypothesis: true location is not equal to 0
> we
Exact Wilcoxon signed rank test
data: y - x
V = 5, p-value = 0.03906
alternative hypothesis: true mu is not equal to 0
> stopifnot(wt$p.value == we$p.value)
>
> x <- c(0.80, 0.83, 1.89, 1.04, 1.45, 1.38, 1.91, 1.64, 0.73, 1.46)
> y <- c(1.15, 0.88, 0.90, 0.74, 1.21)
> we <- wilcox.exact(x, y, alternative = "g") # greater
> wt <- wilcox.test(x, y, alternative = "g")
> stopifnot(we$p.value == wt$p.value)
> stopifnot(all(we$conf.int == wt$conf.int))
>
> x <- rnorm(10)
> y <- rnorm(10, 2)
> wilcox.exact(x, y, conf.int = TRUE)
Exact Wilcoxon rank sum test
data: x and y
W = 13, p-value = 0.003886
alternative hypothesis: true mu is not equal to 0
95 percent confidence interval:
-2.6984506 -0.5996612
sample estimates:
difference in location
-2.07512
>
> if (!any(duplicated(c(x,y)))) {
+ we <- wilcox.exact(x, y, conf.int = TRUE)
+ print(we)
+ wt <- wilcox.test(x, y, conf.int = TRUE)
+ print(wt)
+ we$pointprob <- NULL
+ we$method <- NULL
+ we$null.value <- NULL
+ wt$parameter <- NULL
+ wt$method <- NULL
+ wt$null.value <- NULL
+ stopifnot(all.equal(wt, we))
+ we <- wilcox.exact(x, conf.int = TRUE)
+ print(we)
+ wt <- wilcox.test(x, conf.int = TRUE)
+ print(wt)
+ we$pointprob <- NULL
+ we$method <- NULL
+ we$null.value <- NULL
+ wt$parameter <- NULL
+ wt$method <- NULL
+ wt$null.value <- NULL
+ stopifnot(all.equal(wt, we))
+ }
Exact Wilcoxon rank sum test
data: x and y
W = 13, p-value = 0.003886
alternative hypothesis: true mu is not equal to 0
95 percent confidence interval:
-2.6984506 -0.5996612
sample estimates:
difference in location
-2.07512
Wilcoxon rank sum exact test
data: x and y
W = 13, p-value = 0.003886
alternative hypothesis: true location shift is not equal to 0
95.67429 percent confidence interval:
-2.6984506 -0.5996612
sample estimates:
difference in location
-2.07512
Error: wt and we are not equal:
Component "conf.int": Attributes: < Component "conf.level": Mean relative difference: 0.007047815 >
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.8-36
Check: tests
Result: NOTE
Running ‘bugfix-tests.R’ [0s/0s]
Comparing ‘bugfix-tests.Rout’ to ‘bugfix-tests.Rout.save’ ... OK
Running ‘dtest.R’ [0s/0s]
Running ‘reg-tests.R’ [0s/0s]
Comparing ‘reg-tests.Rout’ to ‘reg-tests.Rout.save’ ...
194c194
< 95 percent confidence interval:
---
> 95.67429 percent confidence interval:
218c218
< 95 percent confidence interval:
---
> 95.11719 percent confidence interval:
Running ‘stest.R’ [1s/1s]
Flavor: r-devel-macos-arm64
Version: 0.8-36
Check: tests
Result: NOTE
Running ‘bugfix-tests.R’ [0s/0s]
Comparing ‘bugfix-tests.Rout’ to ‘bugfix-tests.Rout.save’ ... OK
Running ‘dtest.R’ [0s/0s]
Running ‘reg-tests.R’ [0s/0s]
Comparing ‘reg-tests.Rout’ to ‘reg-tests.Rout.save’ ...194c194
< 95 percent confidence interval:
---
> 95.67429 percent confidence interval:
218c218
< 95 percent confidence interval:
---
> 95.11719 percent confidence interval:
Running ‘stest.R’ [1s/1s]
Flavor: r-release-macos-arm64
Version: 0.8-36
Check: tests
Result: NOTE
Running ‘bugfix-tests.R’ [0s/1s]
Comparing ‘bugfix-tests.Rout’ to ‘bugfix-tests.Rout.save’ ... OK
Running ‘dtest.R’ [1s/4s]
Running ‘reg-tests.R’ [1s/2s]
Comparing ‘reg-tests.Rout’ to ‘reg-tests.Rout.save’ ...194c194
< 95 percent confidence interval:
---
> 95.67429 percent confidence interval:
218c218
< 95 percent confidence interval:
---
> 95.11719 percent confidence interval:
Running ‘stest.R’ [3s/8s]
Flavor: r-release-macos-x86_64
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: ERROR: 2, WARN: 1, OK: 11
Version: 1.0-11
Check: Rd files
Result: WARN
prepare_Rd: ./man/LinStatExpCov.Rd:40: unknown macro '\bibcitet'
prepare_Rd: ./man/LinStatExpCov.Rd:41: unknown macro '\bibcitet'
prepare_Rd: ./man/LinStatExpCov.Rd:42: unknown macro '\bibcitet'
checkRd: (-1) LinStatExpCov.Rd:40: Lost braces
40 | \bibcitet{libcoin::strasserweber1999}, see also
| ^
checkRd: (-1) LinStatExpCov.Rd:41: Lost braces
41 | \bibcitet{libcoin::Hothorn+Hornik+Wiel+Zeileis:2006} and
| ^
checkRd: (-1) LinStatExpCov.Rd:42: Lost braces
42 | \bibcitet{libcoin::Hothorn+Hornik+VanDeWiel:2008}.
| ^
Flavor: r-release-linux-x86_64
Version: 1.0-11
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘libcoin.Rnw’ using Sweave
Error: processing vignette 'libcoin.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'libcoin.tex' failed.
BibTeX errors:
The top-level auxiliary file: libcoin.aux
The style file: plainnat.bst
White space in argument---line 395 of file libcoin.aux
: \bibdata{/Volumes/Builds/packages/big-sur-x86\unhbox
: \voidb@x \protect \penalty \@M \hskip \z@skip \T1\textunderscore \protect \discretionary {\char \hyphenchar \font }{}{}\protect \penalty \@M \hskip \z@skip 64/results/4.5/libcoin.Rcheck/libcoin/REFERENCES}
I'm skipping whatever remains of this command
I found no database files---while reading file libcoin.aux
--- failed re-building ‘libcoin.Rnw’
SUMMARY: processing the following file failed:
‘libcoin.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-macos-x86_64
Version: 1.0-11
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘libcoin.Rnw’ using Sweave
Error: processing vignette 'libcoin.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'libcoin.tex' failed.
BibTeX errors:
The top-level auxiliary file: libcoin.aux
The style file: plainnat.bst
White space in argument---line 395 of file libcoin.aux
: \bibdata{/Volumes/Builds/packages/big-sur-x86\unhbox
: \voidb@x \protect \penalty \@M \hskip \z@skip \T1\textunderscore \protect \discretionary {\char \hyphenchar \font }{}{}\protect \penalty \@M \hskip \z@skip 64/results/4.4/libcoin.Rcheck/libcoin/REFERENCES}
I'm skipping whatever remains of this command
I found no database files---while reading file libcoin.aux
--- failed re-building ‘libcoin.Rnw’
SUMMARY: processing the following file failed:
‘libcoin.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-x86_64
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: WARN: 1, OK: 13
Version: 1.7-4
Check: Rd files
Result: WARN
prepare_Rd: ./man/R.Rd:76: unknown macro '\bibcitep'
checkRd: (-1) R.Rd:76: Lost braces
76 | More examples can be found in \bibcitep{mlt::Hothorn:2018} and in
| ^
prepare_Rd: ./man/ctm.Rd:37: unknown macro '\bibcitet'
prepare_Rd: ./man/ctm.Rd:49: unknown macro '\bibcitep'
checkRd: (-1) ctm.Rd:37: Lost braces
37 | is estimated). \bibcitet{mlt::Hothorn:Moest:Buehlmann:2017} explain the model class.
| ^
checkRd: (-1) ctm.Rd:49: Lost braces
49 | Shift-scale models \bibcitep{mlt::Siegfried_Kook_Hothorn_2023} of the form
| ^
prepare_Rd: ./man/mlt-package.Rd:7: unknown macro '\bibcitet'
prepare_Rd: ./man/mlt-package.Rd:8: unknown macro '\bibcitet'
prepare_Rd: ./man/mlt-package.Rd:9: unknown macro '\bibcitet'
prepare_Rd: ./man/mlt-package.Rd:12: unknown macro '\bibcitep'
checkRd: (-1) mlt-package.Rd:7: Lost braces
7 | conditional transformation models as introduced by \bibcitet{mlt::Hothorn:Moest:Buehlmann:2017},
| ^
checkRd: (-1) mlt-package.Rd:8: Lost braces
8 | its multivariate extension by \bibcitet{mlt::Klein:Hothorn:Barbanti:2020}, and
| ^
checkRd: (-1) mlt-package.Rd:9: Lost braces
9 | location-scale models by \bibcitet{Siegfried_Kook_Hothorn_2023}.
| ^
checkRd: (-1) mlt-package.Rd:12: Lost braces
12 | vignette from package \code{mlt.docreg} \bibcitep{mlt::Hothorn:2018}.
| ^
prepare_Rd: ./man/mlt.Rd:40: unknown macro '\bibcitet'
prepare_Rd: ./man/mlt.Rd:41: unknown macro '\bibcitep'
prepare_Rd: ./man/mlt.Rd:42: unknown macro '\bibcitep'
checkRd: (-1) mlt.Rd:40: Lost braces
40 | \bibcitet{mlt::Hothorn:Moest:Buehlmann:2017}, including location-scale models
| ^
checkRd: (-1) mlt.Rd:41: Lost braces
41 | \bibcitep{Siegfried_Kook_Hothorn_2023}. Implementation details are given
| ^
checkRd: (-1) mlt.Rd:42: Lost braces
42 | in \bibcitep{mlt::Hothorn:2018}.
| ^
prepare_Rd: ./man/mmlt.Rd:92: unknown macro '\bibcitet'
checkRd: (-1) mmlt.Rd:92: Lost braces
92 | as described by \bibcitet{mlt::Klein:Hothorn:Barbanti:2020}.
| ^
prepare_Rd: ./man/predict.Rd:97: unknown macro '\bibcitep'
checkRd: (-1) predict.Rd:97: Lost braces
97 | More examples can be found in \bibcitep{mlt::Hothorn:2018}.
| ^
Flavor: r-release-linux-x86_64
Current CRAN status: WARN: 2, OK: 12
Version: 1.1-12
Check: tests
Result: NOTE
Running ‘AFT-Ex.R’ [1s/1s]
Comparing ‘AFT-Ex.Rout’ to ‘AFT-Ex.Rout.save’ ...179c179
< 1.0000 -0.3657 0.6942 1.1191
---
> 1.0000 -0.3657 0.6942 1.1192
Running ‘GBSG2.R’ [1s/1s]
Running ‘KM-Ex.R’ [1s/1s]
Comparing ‘KM-Ex.Rout’ to ‘KM-Ex.Rout.save’ ... OK
Running ‘faithful.R’ [1s/1s]
Comparing ‘faithful.Rout’ to ‘faithful.Rout.save’ ... OK
Running ‘orm-Ex.R’ [8s/5s]
Comparing ‘orm-Ex.Rout’ to ‘orm-Ex.Rout.save’ ... OK
Running ‘timedep_covar.R’ [1s/1s]
Comparing ‘timedep_covar.Rout’ to ‘timedep_covar.Rout.save’ ... OK
Running ‘truncreg-Ex.R’ [1s/1s]
Comparing ‘truncreg-Ex.Rout’ to ‘truncreg-Ex.Rout.save’ ... OK
Flavor: r-release-macos-arm64
Version: 1.1-12
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘mlt.Rnw’ using knitr
trying URL 'https://zenodo.org/record/17179/files/DVC.tgz'
Content type 'application/octet-stream' length 2292581 bytes (2.2 MB)
==================================================
downloaded 2.2 MB
2025-12-09 06:37:02.773 R[94880:726293] XType: Using static font registry.
Error: processing vignette 'mlt.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'mlt.tex' failed.
LaTeX errors:
! LaTeX Error: File `accents.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.28 \usepackage
{rotating}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘mlt.Rnw’
SUMMARY: processing the following file failed:
‘mlt.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-macos-arm64
Version: 1.1-12
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘mlt.Rnw’ using knitr
trying URL 'https://zenodo.org/record/17179/files/DVC.tgz'
Content type 'application/octet-stream' length 2292581 bytes (2.2 MB)
==================================================
downloaded 2.2 MB
2025-12-09 06:27:49.496 R[27606:333961] XType: Using static font registry.
Error: processing vignette 'mlt.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'mlt.tex' failed.
LaTeX errors:
! LaTeX Error: File `accents.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.28 \usepackage
{rotating}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘mlt.Rnw’
SUMMARY: processing the following file failed:
‘mlt.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-arm64
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: OK: 14
Current CRAN status: WARN: 1, NOTE: 2, OK: 11
Version: 1.2-26
Check: tests
Result: NOTE
Running ‘bugfixes.R’ [1s/1s]
Comparing ‘bugfixes.Rout’ to ‘bugfixes.Rout.save’ ...
1143c1143
< criterion -0.0004771838 -0.0004771838
---
> criterion -0.0001771838 -0.0001771838
Running ‘constparty.R’ [1s/1s]
Comparing ‘constparty.Rout’ to ‘constparty.Rout.save’ ... OK
Running ‘regtest-MIA.R’ [0s/0s]
Comparing ‘regtest-MIA.Rout’ to ‘regtest-MIA.Rout.save’ ... OK
Running ‘regtest-cforest.R’ [2s/2s]
Comparing ‘regtest-cforest.Rout’ to ‘regtest-cforest.Rout.save’ ... OK
Running ‘regtest-ctree.R’ [0s/0s]
Comparing ‘regtest-ctree.Rout’ to ‘regtest-ctree.Rout.save’ ... OK
Running ‘regtest-glmtree.R’ [9s/9s]
Comparing ‘regtest-glmtree.Rout’ to ‘regtest-glmtree.Rout.save’ ... OK
Running ‘regtest-honesty.R’ [0s/0s]
Running ‘regtest-lmtree.R’ [1s/1s]
Running ‘regtest-nmax.R’ [0s/0s]
Comparing ‘regtest-nmax.Rout’ to ‘regtest-nmax.Rout.save’ ... OK
Running ‘regtest-node.R’ [0s/0s]
Comparing ‘regtest-node.Rout’ to ‘regtest-node.Rout.save’ ... OK
Running ‘regtest-party-random.R’ [1s/1s]
Running ‘regtest-party.R’ [1s/1s]
Comparing ‘regtest-party.Rout’ to ‘regtest-party.Rout.save’ ... OK
Running ‘regtest-split.R’ [0s/0s]
Comparing ‘regtest-split.Rout’ to ‘regtest-split.Rout.save’ ... OK
Running ‘regtest-weights.R’ [0s/1s]
Comparing ‘regtest-weights.Rout’ to ‘regtest-weights.Rout.save’ ... OK
Flavor: r-devel-macos-arm64
Version: 1.2-26
Check: Rd files
Result: WARN
prepare_Rd: ./man/HuntingSpiders.Rd:39: unknown macro '\bibcitet'
prepare_Rd: ./man/HuntingSpiders.Rd:40: unknown macro '\bibcitet'
checkRd: (-1) HuntingSpiders.Rd:39: Lost braces
39 | The data were originally analyzed by \bibcitet{partykit::VanDerAart+SmeenkEnserink:1975}.
| ^
checkRd: (-1) HuntingSpiders.Rd:40: Lost braces
40 | \bibcitet{partykit::Death:2002} transformed all variables to the 0--9 scale and employed
| ^
prepare_Rd: ./man/WeatherPlay.Rd:25: unknown macro '\bibcitet'
checkRd: (-1) WeatherPlay.Rd:25: Lost braces
25 | Table 1.3 in \bibcitet{partykit::Witten+Frank:2011}.
| ^
prepare_Rd: ./man/cforest.Rd:85: unknown macro '\bibcitet'
prepare_Rd: ./man/cforest.Rd:163: unknown macro '\bibcitet'
prepare_Rd: ./man/cforest.Rd:164: unknown macro '\bibcitet'
prepare_Rd: ./man/cforest.Rd:175: unknown macro '\bibcitet'
prepare_Rd: ./man/cforest.Rd:176: unknown macro '\bibcitet'
prepare_Rd: ./man/cforest.Rd:194: unknown macro '\bibcitet'
prepare_Rd: ./man/cforest.Rd:195: unknown macro '\bibcitet'
prepare_Rd: ./man/cforest.Rd:196: unknown macro '\bibcitet'
checkRd: (-1) cforest.Rd:85: Lost braces
85 | \bibcitet{partykit::Wager_Athey_2018}.}
| ^
checkRd: (-1) cforest.Rd:163: Lost braces
163 | See \bibcitet{partykit::Hothorn+Lausen+Benner:2004} and
| ^
checkRd: (-1) cforest.Rd:164: Lost braces
164 | \bibcitet{partykit::Meinshausen_2006} for a description.
| ^
checkRd: (-1) cforest.Rd:175: Lost braces
175 | \bibcitet{partykit::Hothorn+Lausen+Benner:2004} and
| ^
checkRd: (-1) cforest.Rd:176: Lost braces
176 | \bibcitet{partykit::Hothorn+Buehlmann+Dudoit:2006}, or to
| ^
checkRd: (-1) cforest.Rd:194: Lost braces
194 | are used by default. See \bibcitet{partykit::Hothorn+Hornik+Zeileis:2006} and
| ^
checkRd: (-1) cforest.Rd:195: Lost braces
195 | \bibcitet{partykit::Strobl+Boulesteix+Zeileis:2006}
| ^
checkRd: (-1) cforest.Rd:196: Lost braces
196 | as well as \bibcitet{partykit::Strobl+Malley+Tutz:2009}.
| ^
prepare_Rd: ./man/ctree.Rd:68: unknown macro '\bibcitet'
prepare_Rd: ./man/ctree.Rd:82: unknown macro '\bibcitet'
prepare_Rd: ./man/ctree.Rd:105: unknown macro '\bibcitet'
prepare_Rd: ./man/ctree.Rd:106: unknown macro '\bibcitet'
prepare_Rd: ./man/ctree.Rd:107: unknown macro '\bibcitet'
checkRd: (-1) ctree.Rd:68: Lost braces
68 | or permutation tests, developed by \bibcitet{partykit::Strasser+Weber:1999}. The stop
| ^
checkRd: (-1) ctree.Rd:82: Lost braces
82 | \bibcitet{partykit::Hothorn+Hornik+Zeileis:2006}.
| ^
checkRd: (-1) ctree.Rd:105: Lost braces
105 | \bibcitet{partykit::Hothorn+Hornik+Zeileis:2006} and
| ^
checkRd: (-1) ctree.Rd:106: Lost braces
106 | \bibcitet{partykit::Hothorn+Hornik+Wiel+Zeileis:2006}. The implementation is
| ^
checkRd: (-1) ctree.Rd:107: Lost braces
107 | described in \bibcitet{partykit::Hothorn_Zeileis_2015}.
| ^
prepare_Rd: ./man/ctree_control.Rd:66: unknown macro '\bibcitet'
prepare_Rd: ./man/ctree_control.Rd:86: unknown macro '\bibcitet'
checkRd: (-1) ctree_control.Rd:66: Lost braces
66 | see \bibcitet{partykit::Twala+Jones+Hand:2008}.}
| ^
checkRd: (-1) ctree_control.Rd:86: Lost braces
86 | \bibcitet{partykit::Galili+Meilijson:2016}.}
| ^
prepare_Rd: ./man/glmtree.Rd:59: unknown macro '\bibcitet'
checkRd: (-1) glmtree.Rd:59: Lost braces
59 | The methodology is described in \bibcitet{partykit::Zeileis+Hothorn+Hornik:2008}.
| ^
prepare_Rd: ./man/lmtree.Rd:56: unknown macro '\bibcitet'
checkRd: (-1) lmtree.Rd:56: Lost braces
56 | The methodology is described in \bibcitet{partykit::Zeileis+Hothorn+Hornik:2008}.
| ^
prepare_Rd: ./man/mob.Rd:84: unknown macro '\bibcitet'
prepare_Rd: ./man/mob.Rd:123: unknown macro '\bibcitet'
checkRd: (-1) mob.Rd:84: Lost braces
84 | \bibcitet{partykit::Zeileis+Hothorn+Hornik:2008} and some illustrations are provided in
| ^
checkRd: (-1) mob.Rd:123: Lost braces
123 | by \bibcitet{partykit::Hothorn_Zeileis_2015}.
| ^
prepare_Rd: ./man/panelfunctions.Rd:131: unknown macro '\bibcitep'
checkRd: (-1) panelfunctions.Rd:131: Lost braces
131 | \bibcitep{partykit::Meyer+Zeileis+Hornik:2006}
| ^
prepare_Rd: ./man/party-plot.Rd:85: unknown macro '\bibcitet'
checkRd: (-1) party-plot.Rd:85: Lost braces
85 | \bibcitet{partykit::Meyer+Zeileis+Hornik:2006}.
| ^
prepare_Rd: ./man/party.Rd:80: unknown macro '\bibcitet'
checkRd: (-1) party.Rd:80: Lost braces
80 | An introduction is available from \bibcitet{partykit::Hothorn_Zeileis_2015}.
| ^
prepare_Rd: ./man/partynode.Rd:97: unknown macro '\bibcitet'
checkRd: (-1) partynode.Rd:97: Lost braces
97 | An introduction is available from \bibcitet{partykit::Hothorn_Zeileis_2015}.
| ^
prepare_Rd: ./man/partysplit.Rd:100: unknown macro '\bibcitet'
checkRd: (-1) partysplit.Rd:100: Lost braces
100 | An introduction is available from \bibcitet{partykit::Hothorn_Zeileis_2015}.
| ^
prepare_Rd: ./man/varimp.Rd:62: unknown macro '\bibcitet'
prepare_Rd: ./man/varimp.Rd:70: unknown macro '\bibcitet'
checkRd: (-1) varimp.Rd:62: Lost braces
62 | See \bibcitet{partykit::Strobl+Boulesteix+Kneib:2008} for details.
| ^
checkRd: (-1) varimp.Rd:70: Lost braces
70 | described in \bibcitet{partykit::Hapfelmeier_Hothorn_Ulm_Strobl_2014} is performed.
| ^
Flavor: r-release-linux-x86_64
Version: 1.2-26
Check: tests
Result: NOTE
Running ‘bugfixes.R’ [1s/1s]
Comparing ‘bugfixes.Rout’ to ‘bugfixes.Rout.save’ ...1143c1143
< criterion -0.0004771838 -0.0004771838
---
> criterion -0.0001771838 -0.0001771838
Running ‘constparty.R’ [1s/1s]
Comparing ‘constparty.Rout’ to ‘constparty.Rout.save’ ... OK
Running ‘regtest-MIA.R’ [0s/1s]
Comparing ‘regtest-MIA.Rout’ to ‘regtest-MIA.Rout.save’ ... OK
Running ‘regtest-cforest.R’ [2s/2s]
Comparing ‘regtest-cforest.Rout’ to ‘regtest-cforest.Rout.save’ ... OK
Running ‘regtest-ctree.R’ [0s/0s]
Comparing ‘regtest-ctree.Rout’ to ‘regtest-ctree.Rout.save’ ... OK
Running ‘regtest-glmtree.R’ [9s/9s]
Comparing ‘regtest-glmtree.Rout’ to ‘regtest-glmtree.Rout.save’ ... OK
Running ‘regtest-honesty.R’ [0s/0s]
Running ‘regtest-lmtree.R’ [1s/1s]
Running ‘regtest-nmax.R’ [0s/0s]
Comparing ‘regtest-nmax.Rout’ to ‘regtest-nmax.Rout.save’ ... OK
Running ‘regtest-node.R’ [0s/0s]
Comparing ‘regtest-node.Rout’ to ‘regtest-node.Rout.save’ ... OK
Running ‘regtest-party-random.R’ [1s/1s]
Running ‘regtest-party.R’ [1s/1s]
Comparing ‘regtest-party.Rout’ to ‘regtest-party.Rout.save’ ... OK
Running ‘regtest-split.R’ [0s/0s]
Comparing ‘regtest-split.Rout’ to ‘regtest-split.Rout.save’ ... OK
Running ‘regtest-weights.R’ [0s/0s]
Comparing ‘regtest-weights.Rout’ to ‘regtest-weights.Rout.save’ ... OK
Flavor: r-release-macos-arm64
Current CRAN status: WARN: 2, OK: 12
Version: 0.3-10
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘tbm_supplement.Rnw’ using knitr
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
warning: solve(): system is singular (rcond: 3.43764e-20); attempting approx solution
2025-12-02 22:49:48.534 R[68727:523714] XType: Using static font registry.
warning: solve(): system is singular (rcond: 4.23371e-22); attempting approx solution
warning: solve(): system is singular (rcond: 4.23371e-22); attempting approx solution
warning: solve(): system is singular (rcond: 4.23371e-22); attempting approx solution
warning: solve(): system is singular (rcond: 4.23371e-22); attempting approx solution
warning: solve(): system is singular (rcond: 4.23371e-22); attempting approx solution
warning: solve(): system is singular (rcond: 1.2944e-18); attempting approx solution
warning: solve(): system is singular (rcond: 1.2944e-18); attempting approx solution
warning: solve(): system is singular (rcond: 1.2944e-18); attempting approx solution
warning: solve(): system is singular (rcond: 1.2944e-18); attempting approx solution
warning: solve(): system is singular (rcond: 1.2944e-18); attempting approx solution
Error: processing vignette 'tbm_supplement.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'tbm_supplement.tex' failed.
LaTeX errors:
! LaTeX Error: File `accents.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.28 \usepackage
{xcolor}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘tbm_supplement.Rnw’
SUMMARY: processing the following file failed:
‘tbm_supplement.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-macos-arm64
Version: 0.3-10
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘tbm_supplement.Rnw’ using knitr
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
warning: solve(): system is singular (rcond: 6.12788e-20); attempting approx solution
2025-12-02 23:14:38.843 R[45890:207220] XType: Using static font registry.
warning: solve(): system is singular (rcond: 3.08648e-22); attempting approx solution
warning: solve(): system is singular (rcond: 3.08648e-22); attempting approx solution
warning: solve(): system is singular (rcond: 3.08648e-22); attempting approx solution
warning: solve(): system is singular (rcond: 3.08648e-22); attempting approx solution
warning: solve(): system is singular (rcond: 3.08648e-22); attempting approx solution
warning: solve(): system is singular (rcond: 1.09606e-18); attempting approx solution
warning: solve(): system is singular (rcond: 1.09606e-18); attempting approx solution
warning: solve(): system is singular (rcond: 1.09606e-18); attempting approx solution
warning: solve(): system is singular (rcond: 1.09606e-18); attempting approx solution
warning: solve(): system is singular (rcond: 1.09606e-18); attempting approx solution
Error: processing vignette 'tbm_supplement.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'tbm_supplement.tex' failed.
LaTeX errors:
! LaTeX Error: File `accents.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.28 \usepackage
{xcolor}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘tbm_supplement.Rnw’
SUMMARY: processing the following file failed:
‘tbm_supplement.Rnw’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-arm64
Current CRAN status: NOTE: 3, OK: 11
Version: 1.1-5
Check: installed package size
Result: NOTE
installed size is 8.9Mb
sub-directories of 1Mb or more:
data 1.1Mb
rda 7.1Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Current CRAN status: ERROR: 2, NOTE: 1, OK: 11
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
Version: 1.4-0
Flags: --no-vignettes
Check: tests
Result: NOTE
Running 'Coxph-Ex.R' [12s]
Comparing 'Coxph-Ex.Rout' to 'Coxph-Ex.Rout.save' ... OK
Running 'KaplanMeier-Ex.R' [3s]
Running 'PI_OVL-Ex.R' [3s]
Running 'Polr-Ex.R' [10s]
Comparing 'Polr-Ex.Rout' to 'Polr-Ex.Rout.save' ... OK
Running 'Survreg-Ex.R' [5s]
Comparing 'Survreg-Ex.Rout' to 'Survreg-Ex.Rout.save' ... OK
Running 'bugfixes.R' [67s]
Running 'intercepts-Ex.R' [4s]
Comparing 'intercepts-Ex.Rout' to 'intercepts-Ex.Rout.save' ... OK
Running 'mmlt-Ex.R' [100s]
Comparing 'mmlt-Ex.Rout' to 'mmlt-Ex.Rout.save' ... OK
Running 'mmlt-interface.R' [33s]
Running 'mtram-Ex.R' [10s]
Comparing 'mtram-Ex.Rout' to 'mtram-Ex.Rout.save' ...63,64d62
< attr(,"class")
< [1] "vcmat_us" "matrix" "array"
Running 'stram-Ex.R' [40s]
Comparing 'stram-Ex.Rout' to 'stram-Ex.Rout.save' ... OK
Flavor: r-release-windows-x86_64
Current CRAN status: OK: 14
Current CRAN status: OK: 14
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.