############################################################################## ############################################################################## ### ### Running command: ### ### chmod a+r scp -R && F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data scp ### ############################################################################## ############################################################################## * checking for file 'scp/DESCRIPTION' ... OK * preparing 'scp': * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building 'QFeatures_nutshell.Rmd' using rmarkdown Quitting from QFeatures_nutshell.Rmd:353-360 [longForm] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `.matchAddColData()`: ! argument "check.names" is missing, with no default --- Backtrace: ▆ 1. ├─BiocGenerics::longForm(...) 2. └─QFeatures::longForm(scp1[, , 1], colvars = c("SampleType", "Channel")) 3. └─QFeatures (local) .local(object, ...) 4. └─QFeatures:::longFormQFeatures(object, colvars, rowvars, i) 5. ├─MultiAssayExperiment::longForm(...) 6. └─MultiAssayExperiment::longForm(...) 7. └─MultiAssayExperiment (local) .local(object, ...) 8. └─MultiAssayExperiment:::.matchAddColData(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'QFeatures_nutshell.Rmd' failed with diagnostics: argument "check.names" is missing, with no default --- failed re-building 'QFeatures_nutshell.Rmd' --- re-building 'advanced.Rmd' using rmarkdown --- finished re-building 'advanced.Rmd' --- re-building 'read_scp.Rmd' using rmarkdown --- finished re-building 'read_scp.Rmd' --- re-building 'reporting_missing_values.Rmd' using rmarkdown --- finished re-building 'reporting_missing_values.Rmd' --- re-building 'scp.Rmd' using rmarkdown Quitting from scp.Rmd:985-1007 [monitor_plot] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `.matchAddColData()`: ! argument "check.names" is missing, with no default --- Backtrace: ▆ 1. ├─ggplot2::ggplot(...) 2. ├─dplyr::mutate(...) 3. ├─base::data.frame(...) 4. ├─BiocGenerics::longForm(...) 5. └─QFeatures::longForm(...) 6. └─QFeatures (local) .local(object, ...) 7. └─QFeatures:::longFormQFeatures(object, colvars, rowvars, i) 8. ├─MultiAssayExperiment::longForm(...) 9. └─MultiAssayExperiment::longForm(...) 10. └─MultiAssayExperiment (local) .local(object, ...) 11. └─MultiAssayExperiment:::.matchAddColData(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'scp.Rmd' failed with diagnostics: argument "check.names" is missing, with no default --- failed re-building 'scp.Rmd' --- re-building 'scp_data_modelling.Rmd' using rmarkdown Warning: ggrepel: 14 unlabeled data points (too many overlaps). Consider increasing max.overlaps --- finished re-building 'scp_data_modelling.Rmd' SUMMARY: processing the following files failed: 'QFeatures_nutshell.Rmd' 'scp.Rmd' Error: Vignette re-building failed. Execution halted