Last updated on 2021-05-17 17:47:59 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 4.1-1 | 31.83 | 280.71 | 312.54 | OK | |
| r-devel-linux-x86_64-debian-gcc | 4.1-1 | 26.65 | 207.29 | 233.94 | OK | |
| r-devel-linux-x86_64-fedora-clang | 4.1-1 | 368.52 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 4.1-1 | 363.38 | OK | |||
| r-devel-windows-ix86+x86_64 | 4.1-1 | 70.00 | 412.00 | 482.00 | OK | |
| r-devel-windows-x86_64-gcc10-UCRT | 4.1-1 | OK | ||||
| r-patched-linux-x86_64 | 4.1-1 | 29.48 | 269.52 | 299.00 | OK | |
| r-patched-solaris-x86 | 4.1-1 | 273.60 | ERROR | |||
| r-release-linux-x86_64 | 4.1-1 | 29.38 | 262.25 | 291.63 | OK | |
| r-release-macos-x86_64 | 4.1-1 | OK | ||||
| r-release-windows-ix86+x86_64 | 4.1-1 | 51.00 | 330.00 | 381.00 | OK | |
| r-oldrel-macos-x86_64 | 4.1-1 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 4.1-1 | 50.00 | 424.00 | 474.00 | 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$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
(process:27877): Pango-WARNING **: failed to create cairo scaled font, expect ugly output. the offending font is 'Helvetica Medium 9'
(process:27877): Pango-WARNING **: font_face status is: <unknown error status>
(process:27877): Pango-WARNING **: scaled_font status is: invalid matrix (not invertible)
(process:27877): Pango-WARNING **: shaping failure, expect ugly output. shape-engine='BasicEngineFc', font='Helvetica Medium 9', text='m'
Quitting from lines 189-191 (Coxnet.Rmd)
Error: processing vignette 'Coxnet.Rmd' failed with diagnostics:
NA/NaN/Inf in foreign function call (arg 19)
--- failed re-building ‘Coxnet.Rmd’
--- re-building ‘glmnet.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) 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$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Loading required package: Matrix
Loaded glmnet 4.1-1
Quitting from lines 86-89 (glmnetFamily.Rmd)
Error: processing vignette 'glmnetFamily.Rmd' failed with diagnostics:
NA/NaN/Inf in foreign function call (arg 25)
--- failed re-building ‘glmnetFamily.Rmd’
--- re-building ‘relax.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) 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