Last updated on 2021-03-07 19:48:57 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 6.0.0 | 15.62 | 202.77 | 218.39 | OK | |
| r-devel-linux-x86_64-debian-gcc | 6.0.0 | 13.66 | 143.09 | 156.75 | OK | |
| r-devel-linux-x86_64-fedora-clang | 6.0.0 | 261.46 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 6.0.0 | 261.50 | OK | |||
| r-devel-windows-ix86+x86_64 | 6.0.0 | 34.00 | 252.00 | 286.00 | OK | |
| r-devel-windows-x86_64-gcc10-UCRT | 6.0.0 | OK | ||||
| r-patched-linux-x86_64 | 6.0.0 | 15.73 | 183.53 | 199.26 | OK | |
| r-patched-solaris-x86 | 6.0.0 | 260.10 | ERROR | |||
| r-release-linux-x86_64 | 6.0.0 | 13.60 | 182.01 | 195.61 | OK | |
| r-release-macos-x86_64 | 6.0.0 | OK | ||||
| r-release-windows-ix86+x86_64 | 6.0.0 | 29.00 | 189.00 | 218.00 | OK | |
| r-oldrel-macos-x86_64 | 6.0.0 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 6.0.0 | 23.00 | 187.00 | 210.00 | OK |
Version: 6.0.0
Check: examples
Result: ERROR
Running examples in ‘hdnom-Ex.R’ failed
The error most likely occurred in:
> ### Name: calibrate
> ### Title: Calibrate high-dimensional Cox models
> ### Aliases: calibrate
>
> ### ** Examples
>
> data("smart")
> x <- as.matrix(smart[, -c(1, 2)])
> time <- smart$TEVENT
> event <- smart$EVENT
> y <- survival::Surv(time, event)
>
> # Fit Cox model with lasso penalty
> fit <- fit_lasso(x, y, nfolds = 5, rule = "lambda.1se", seed = 11)
Warning: from glmnet Fortran code (error code -30000); Numerical error at 0th lambda value; solutions for larger values of lambda returned
Warning in getcoef(fit, nvars, nx, vnames) :
an empty model has been returned; probably a convergence issue
Warning: from glmnet Fortran code (error code -30000); Numerical error at 0th lambda value; solutions for larger values of lambda returned
Warning in getcoef(fit, nvars, nx, vnames) :
an empty model has been returned; probably a convergence issue
Warning: from glmnet Fortran code (error code -30000); Numerical error at 0th lambda value; solutions for larger values of lambda returned
Warning in getcoef(fit, nvars, nx, vnames) :
an empty model has been returned; probably a convergence issue
Warning: from glmnet Fortran code (error code -30000); Numerical error at 0th lambda value; solutions for larger values of lambda returned
Warning in getcoef(fit, nvars, nx, vnames) :
an empty model has been returned; probably a convergence issue
Warning: from glmnet Fortran code (error code -30000); Numerical error at 0th lambda value; solutions for larger values of lambda returned
Warning in getcoef(fit, nvars, nx, vnames) :
an empty model has been returned; probably a convergence issue
Warning: from glmnet Fortran code (error code -30000); Numerical error at 0th lambda value; solutions for larger values of lambda returned
Warning in getcoef(fit, nvars, nx, vnames) :
an empty model has been returned; probably a convergence issue
Error in coxnet(xd, is.sparse, ix, jx, y, weights, offset, alpha, nobs, :
NA/NaN/Inf in foreign function call (arg 16)
Calls: fit_lasso -> glmnet -> coxnet
Execution halted
Flavor: r-patched-solaris-x86
Version: 6.0.0
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘hdnom.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:24052): Pango-WARNING **: failed to create cairo scaled font, expect ugly output. the offending font is 'Helvetica Medium 10.5'
(process:24052): Pango-WARNING **: font_face status is: no error has occurred
(process:24052): Pango-WARNING **: scaled_font status is: invalid matrix (not invertible)
(process:24052): Pango-WARNING **: shaping failure, expect ugly output. shape-engine='BasicEngineFc', font='Helvetica Medium 10.5', text='M'
Quitting from lines 367-379 (hdnom.Rmd)
Error: processing vignette 'hdnom.Rmd' failed with diagnostics:
NA/NaN/Inf in foreign function call (arg 16)
--- failed re-building ‘hdnom.Rmd’
SUMMARY: processing the following file failed:
‘hdnom.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86