############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data CytoPipelineGUI ### ############################################################################## ############################################################################## * checking for file ‘CytoPipelineGUI/DESCRIPTION’ ... OK * preparing ‘CytoPipelineGUI’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘CytoPipelineGUI.Rmd’ using rmarkdown | | | 0% | |++ | 5% | |+++++ | 10% | |++++++++ | 15% | |++++++++++ | 20% | |++++++++++++ | 25% | |+++++++++++++++ | 30% | |++++++++++++++++++ | 35% | |++++++++++++++++++++ | 40% | |++++++++++++++++++++++ | 45% | |+++++++++++++++++++++++++ | 50% | |++++++++++++++++++++++++++++ | 55% | |++++++++++++++++++++++++++++++ | 60% | |++++++++++++++++++++++++++++++++ | 65% | |+++++++++++++++++++++++++++++++++++ | 70% | |++++++++++++++++++++++++++++++++++++++ | 75% | |++++++++++++++++++++++++++++++++++++++++ | 80% | |++++++++++++++++++++++++++++++++++++++++++ | 85% | |+++++++++++++++++++++++++++++++++++++++++++++ | 90% | |++++++++++++++++++++++++++++++++++++++++++++++++ | 95% | |++++++++++++++++++++++++++++++++++++++++++++++++++| 100% | | | 0% | |++ | 5% | |+++++ | 10% | |++++++++ | 15% | |++++++++++ | 20% | |++++++++++++ | 25% | |+++++++++++++++ | 30% | |++++++++++++++++++ | 35% | |++++++++++++++++++++ | 40% | |++++++++++++++++++++++ | 45% | |+++++++++++++++++++++++++ | 50% | |++++++++++++++++++++++++++++ | 55% | |++++++++++++++++++++++++++++++ | 60% | |++++++++++++++++++++++++++++++++ | 65% | |+++++++++++++++++++++++++++++++++++ | 70% | |++++++++++++++++++++++++++++++++++++++ | 75% | |++++++++++++++++++++++++++++++++++++++++ | 80% | |++++++++++++++++++++++++++++++++++++++++++ | 85% | |+++++++++++++++++++++++++++++++++++++++++++++ | 90% | |++++++++++++++++++++++++++++++++++++++++++++++++ | 95% | |++++++++++++++++++++++++++++++++++++++++++++++++++| 100% Quitting from CytoPipelineGUI.Rmd:180-188 [workflow_viz_prog] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `plotCytoPipelineProcessingQueue()`: ! sampleFile not found in CytoPipeline --- Backtrace: ▆ 1. └─CytoPipelineGUI::plotSelectedWorkflow(...) 2. └─CytoPipeline::plotCytoPipelineProcessingQueue(...) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'CytoPipelineGUI.Rmd' failed with diagnostics: sampleFile not found in CytoPipeline --- failed re-building ‘CytoPipelineGUI.Rmd’ --- re-building ‘Demo.Rmd’ using rmarkdown --- finished re-building ‘Demo.Rmd’ SUMMARY: processing the following file failed: ‘CytoPipelineGUI.Rmd’ Error: Vignette re-building failed. Execution halted