Last updated on 2019-12-11 22:51:09 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 6.0.0 | 15.39 | 179.31 | 194.70 | OK | |
| r-devel-linux-x86_64-debian-gcc | 6.0.0 | 13.50 | 132.83 | 146.33 | OK | |
| r-devel-linux-x86_64-fedora-clang | 6.0.0 | 232.37 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 6.0.0 | 237.14 | OK | |||
| r-devel-windows-ix86+x86_64 | 6.0.0 | 31.00 | 246.00 | 277.00 | OK | |
| r-devel-windows-ix86+x86_64-gcc8 | 6.0.0 | 32.00 | 266.00 | 298.00 | OK | |
| r-patched-linux-x86_64 | 6.0.0 | 13.95 | 166.49 | 180.44 | OK | |
| r-patched-solaris-x86 | 6.0.0 | 235.10 | ERROR | |||
| r-release-linux-x86_64 | 6.0.0 | 14.80 | 160.82 | 175.62 | OK | |
| r-release-windows-ix86+x86_64 | 6.0.0 | 28.00 | 184.00 | 212.00 | OK | |
| r-release-osx-x86_64 | 6.0.0 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 6.0.0 | 16.00 | 159.00 | 175.00 | WARN | |
| r-oldrel-osx-x86_64 | 6.0.0 | 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(x, 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:6474): Pango-WARNING **: failed to create cairo scaled font, expect ugly output. the offending font is 'Helvetica Medium 10.5'
(process:6474): Pango-WARNING **: font_face status is: no error has occurred
(process:6474): Pango-WARNING **: scaled_font status is: invalid matrix (not invertible)
(process:6474): 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
Version: 6.0.0
Check: whether package can be installed
Result: WARN
Found the following significant warnings:
Warning: S3 methods '[.fun_list', '[.grouped_df', 'all.equal.tbl_df', 'anti_join.data.frame', 'anti_join.tbl_df', 'arrange.data.frame', 'arrange.default', 'arrange.grouped_df', 'arrange.tbl_df', 'arrange_.data.frame', 'arrange_.tbl_df', 'as.data.frame.grouped_df', 'as.data.frame.rowwise_df', 'as.data.frame.tbl_cube', 'as.table.tbl_cube', 'as.tbl.data.frame', 'as.tbl.tbl', 'as.tbl_cube.array', 'as.tbl_cube.data.frame', 'as.tbl_cube.matrix', 'as.tbl_cube.table', 'as_tibble.grouped_df', 'as_tibble.tbl_cube', 'auto_copy.tbl_cube', 'auto_copy.tbl_df', 'cbind.grouped_df', 'collapse.data.frame', 'collect.data.frame', 'common_by.NULL', 'common_by.character', 'common_by.default', 'common_by.list', 'compute.data.frame', 'copy_to.DBIConnection', 'copy_to.src_local', 'default_missing.data.frame', 'default_missing.default', 'dim.tbl_cube', 'distinct.data.frame', 'distinct.default', 'distinct.grouped_df', 'distinct.tbl_df', 'distinct_.data.frame', 'distinct_.grouped_df', 'distinct_.tbl_df', 'do.NULL', 'do.da [... truncated]
Flavor: r-oldrel-windows-ix86+x86_64