##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MetMashR
###
##############################################################################
##############################################################################


* checking for file ‘MetMashR/DESCRIPTION’ ... OK
* preparing ‘MetMashR’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘Extending_MetMashR.Rmd’ using rmarkdown

Quitting from Extending_MetMashR.Rmd:534-553 [unnamed-chunk-19]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `validObject()`:
! invalid class "openbabel_structure" object: The required package "ChemmineOB" is not installed.
---
Backtrace:
    ▆
 1. └─MetMashR::openbabel_structure(...)
 2.   └─struct::new_struct(...)
 3.     ├─BiocGenerics::do.call(new, L)
 4.     ├─base::do.call(new, L)
 5.     └─methods (local) `<fn>`(...)
 6.       ├─methods::initialize(value, ...)
 7.       └─methods::initialize(value, ...)
 8.         └─methods::validObject(.Object)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'Extending_MetMashR.Rmd' failed with diagnostics:
invalid class "openbabel_structure" object: The required package "ChemmineOB" is not installed.
--- failed re-building ‘Extending_MetMashR.Rmd’

--- re-building ‘annotate_mixtures.Rmd’ using rmarkdown
--- finished re-building ‘annotate_mixtures.Rmd’

--- re-building ‘exploring_mtox.Rmd’ using rmarkdown

Quitting from exploring_mtox.Rmd:148-170 [unnamed-chunk-7]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `validObject()`:
! invalid class "openbabel_structure" object: The required package "ChemmineOB" is not installed.
---
Backtrace:
    ▆
 1. └─MetMashR::openbabel_structure(...)
 2.   └─struct::new_struct(...)
 3.     ├─BiocGenerics::do.call(new, L)
 4.     ├─base::do.call(new, L)
 5.     └─methods (local) `<fn>`(...)
 6.       ├─methods::initialize(value, ...)
 7.       └─methods::initialize(value, ...)
 8.         └─methods::validObject(.Object)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'exploring_mtox.Rmd' failed with diagnostics:
invalid class "openbabel_structure" object: The required package "ChemmineOB" is not installed.
--- failed re-building ‘exploring_mtox.Rmd’

--- re-building ‘using_MetMashR.Rmd’ using rmarkdown
--- finished re-building ‘using_MetMashR.Rmd’

SUMMARY: processing the following files failed:
  ‘Extending_MetMashR.Rmd’ ‘exploring_mtox.Rmd’

Error: Vignette re-building failed.
Execution halted