===============================
R CMD BUILD
===============================
* checking for file ‘MetabolomicsPipeline/DESCRIPTION’ ... OK
* preparing ‘MetabolomicsPipeline’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MetabolomicsPipeline-vignette.Rmd’ using knitr
Quitting from MetabolomicsPipeline-vignette.Rmd:552-587 [PairwiseAnalysis]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `path.expand()`:
! invalid 'path' argument
---
Backtrace:
▆
1. └─tools::buildVignettes(dir = ".", tangle = TRUE)
2. ├─base::tryCatch(...)
3. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
4. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
6. └─engine$weave(file, quiet = quiet, encoding = enc)
7. └─(if (grepl("\\.[Rr]md$", file)) knit2html else if (grepl("\\.[Rr]rst$", ...
8. └─knitr::knit(input, text = text, envir = envir, quiet = quiet)
9. └─knitr:::process_file(text, output)
10. ├─xfun:::handle_error(...)
11. ├─base::withCallingHandlers(...)
12. └─knitr:::process_group(group)
13. └─knitr:::call_block(x)
14. └─knitr:::block_exec(params)
15. └─knitr:::eng_r(options)
16. ├─knitr:::in_input_dir(...)
17. │ └─knitr:::in_dir(input_dir(), expr)
18. └─knitr (local) evaluate(...)
19. └─evaluate::evaluate(...)
20. ├─base::withRestarts(...)
21. │ └─base (local) withRestartList(expr, restarts)
22. │ ├─base (local) withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]])
23. │ │ └─base (local) doWithOneRestart(return(expr), restart)
24. │ └─base (local) withRestartList(expr, restarts[-nr])
25. │ └─base (local) withOneRestart(expr, restarts[[1L]])
26. │ └─base (local) doWithOneRestart(return(expr), restart)
27. ├─evaluate:::with_handlers(...)
28. │ ├─base::eval(call)
29. │ │ └─base::eval(call)
30. │ └─base::withCallingHandlers(...)
31. └─watcher$print_value(ev$value, ev$visible, envir)
32. ├─base::withVisible(handle_value(handler, value, visible, envir))
33. └─evaluate:::handle_value(handler, value, visible, envir)
34. └─handler$value(value, visible)
35. └─knitr (local) fun(x, options = options)
36. ├─base::withVisible(knit_print(x, ...))
37. └─knitr::knit_print(x, ...)
38. └─knitr:::html_screenshot(x)
39. ├─knitr:::in_dir(...)
40. └─base::normalizePath(f3)
41. └─base::path.expand(path)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'MetabolomicsPipeline-vignette.Rmd' failed with diagnostics:
invalid 'path' argument
--- failed re-building ‘MetabolomicsPipeline-vignette.Rmd’
SUMMARY: processing the following file failed:
‘MetabolomicsPipeline-vignette.Rmd’
Error: Vignette re-building failed.
Execution halted