############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data pmp ### ############################################################################## ############################################################################## * checking for file ‘pmp/DESCRIPTION’ ... OK * preparing ‘pmp’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘pmp_vignette_peak_matrix_processing_for_metabolomics_datasets.Rmd’ using rmarkdown Quitting from lines 227-232 [plot_glog] (pmp_vignette_peak_matrix_processing_for_metabolomics_datasets.Rmd) Error: processing vignette 'pmp_vignette_peak_matrix_processing_for_metabolomics_datasets.Rmd' failed with diagnostics: Problem while computing aesthetics. ℹ Error occurred in the 2nd layer. Caused by error in `data[["lambda"]]`: ! object of type 'closure' is not subsettable --- failed re-building ‘pmp_vignette_peak_matrix_processing_for_metabolomics_datasets.Rmd’ --- re-building ‘pmp_vignette_sbc_spectral_quality_assessment.Rmd’ using rmarkdown 2024-03-01 21:39:09.054 R[52568:917369539] XType: com.apple.fonts is not accessible. 2024-03-01 21:39:09.056 R[52568:917369539] XType: XTFontStaticRegistry is enabled. --- finished re-building ‘pmp_vignette_sbc_spectral_quality_assessment.Rmd’ --- re-building ‘pmp_vignette_signal_batch_correction_mass_spectrometry.Rmd’ using rmarkdown --- finished re-building ‘pmp_vignette_signal_batch_correction_mass_spectrometry.Rmd’ SUMMARY: processing the following file failed: ‘pmp_vignette_peak_matrix_processing_for_metabolomics_datasets.Rmd’ Error: Vignette re-building failed. Execution halted