Last updated on 2021-02-27 06:46:56 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 4.1-1 | 31.31 | 279.94 | 311.25 | OK | |
| r-devel-linux-x86_64-debian-gcc | 4.1-1 | 25.65 | 208.03 | 233.68 | OK | |
| r-devel-linux-x86_64-fedora-clang | 4.1-1 | 394.75 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 4.1-1 | 250.93 | OK | |||
| r-devel-windows-ix86+x86_64 | 4.1 | 48.00 | 329.00 | 377.00 | OK | |
| r-patched-linux-x86_64 | 4.1-1 | 28.53 | 266.15 | 294.68 | OK | |
| r-patched-solaris-x86 | 4.1-1 | 272.10 | ERROR | |||
| r-release-linux-x86_64 | 4.1-1 | 29.69 | 267.79 | 297.48 | OK | |
| r-release-macos-x86_64 | 4.1-1 | OK | ||||
| r-release-windows-ix86+x86_64 | 4.1 | 67.00 | 442.00 | 509.00 | OK | |
| r-oldrel-macos-x86_64 | 4.1-1 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 4.1 | 48.00 | 427.00 | 475.00 | OK |
Version: 4.1-1
Check: examples
Result: ERROR
Running examples in ‘glmnet-Ex.R’ failed
The error most likely occurred in:
> ### Name: cox.path
> ### Title: Fit a Cox regression model with elastic net regularization for a
> ### path of lambda values
> ### Aliases: cox.path
>
> ### ** Examples
>
> set.seed(2)
> nobs <- 100; nvars <- 15
> xvec <- rnorm(nobs * nvars)
> xvec[sample.int(nobs * nvars, size = 0.4 * nobs * nvars)] <- 0
> x <- matrix(xvec, nrow = nobs)
> beta <- rnorm(nvars / 3)
> fx <- x[, seq(nvars / 3)] %*% beta / 3
> ty <- rexp(nobs, exp(fx))
> tcens <- rbinom(n = nobs, prob = 0.3, size = 1)
> jsurv <- survival::Surv(ty, tcens)
> fit1 <- glmnet:::cox.path(x, jsurv)
>
> # works with sparse x matrix
> x_sparse <- Matrix::Matrix(x, sparse = TRUE)
> fit2 <- glmnet:::cox.path(x_sparse, jsurv)
Error in elnet.fit(x, z, w, lambda, alpha, intercept = FALSE, thresh = thresh, :
NA/NaN/Inf in foreign function call (arg 23)
Calls: <Anonymous> -> cox.fit -> elnet.fit
Execution halted
Flavor: r-patched-solaris-x86
Version: 4.1-1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘Coxnet.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
(process:15822): Pango-WARNING **: failed to create cairo scaled font, expect ugly output. the offending font is 'Helvetica Medium 9'
(process:15822): Pango-WARNING **: font_face status is: <unknown error status>
(process:15822): Pango-WARNING **: scaled_font status is: invalid matrix (not invertible)
(process:15822): Pango-WARNING **: shaping failure, expect ugly output. shape-engine='BasicEngineFc', font='Helvetica Medium 9', text='m'
Quitting from lines 189-191 (Coxnet.Rmd)
Error: processing vignette 'Coxnet.Rmd' failed with diagnostics:
NA/NaN/Inf in foreign function call (arg 19)
--- failed re-building ‘Coxnet.Rmd’
--- re-building ‘glmnet.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Loaded lars 1.2
--- finished re-building ‘glmnet.Rmd’
--- re-building ‘glmnetFamily.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Loading required package: Matrix
Loaded glmnet 4.1-1
Quitting from lines 86-89 (glmnetFamily.Rmd)
Error: processing vignette 'glmnetFamily.Rmd' failed with diagnostics:
NA/NaN/Inf in foreign function call (arg 25)
--- failed re-building ‘glmnetFamily.Rmd’
--- re-building ‘relax.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
--- finished re-building ‘relax.Rmd’
SUMMARY: processing the following files failed:
‘Coxnet.Rmd’ ‘glmnetFamily.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86