############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data RCy3 ### ############################################################################## ############################################################################## * checking for file ‘RCy3/DESCRIPTION’ ... OK * preparing ‘RCy3’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘Cancer-networks-and-data.Rmd’ using rmarkdown --- finished re-building ‘Cancer-networks-and-data.Rmd’ --- re-building ‘Custom-Graphics.Rmd’ using rmarkdown --- finished re-building ‘Custom-Graphics.Rmd’ --- re-building ‘Cytoscape-and-NDEx.Rmd’ using rmarkdown --- finished re-building ‘Cytoscape-and-NDEx.Rmd’ --- re-building ‘Cytoscape-and-graphNEL.Rmd’ using rmarkdown --- finished re-building ‘Cytoscape-and-graphNEL.Rmd’ --- re-building ‘Cytoscape-and-iGraph.Rmd’ using rmarkdown --- finished re-building ‘Cytoscape-and-iGraph.Rmd’ --- re-building ‘Filtering-Networks.Rmd’ using rmarkdown --- finished re-building ‘Filtering-Networks.Rmd’ --- re-building ‘Group-nodes.Rmd’ using rmarkdown --- finished re-building ‘Group-nodes.Rmd’ --- re-building ‘Identifier-mapping.Rmd’ using rmarkdown Error: processing vignette 'Identifier-mapping.Rmd' failed with diagnostics: The closing fence on line 216 ("```") in Identifier-mapping.Rmd does not match the opening fence " ```" on line 214. You are recommended to fix either the opening or closing fence of the code chunk to use exactly the same numbers of backticks and same level of indentation (or blockquote). See https://yihui.org/en/2021/10/unbalanced-delimiters/ for more info. Error: tangling vignette 'Identifier-mapping.Rmd' failed with diagnostics: The closing fence on line 216 ("```") in Identifier-mapping.Rmd does not match the opening fence " ```" on line 214. You are recommended to fix either the opening or closing fence of the code chunk to use exactly the same numbers of backticks and same level of indentation (or blockquote). See https://yihui.org/en/2021/10/unbalanced-delimiters/ for more info. --- failed re-building ‘Identifier-mapping.Rmd’ --- re-building ‘Importing-data.Rmd’ using rmarkdown --- finished re-building ‘Importing-data.Rmd’ --- re-building ‘Jupyter-bridge-rcy3.Rmd’ using rmarkdown --- finished re-building ‘Jupyter-bridge-rcy3.Rmd’ --- re-building ‘Network-functions-and-visualization.Rmd’ using rmarkdown --- finished re-building ‘Network-functions-and-visualization.Rmd’ --- re-building ‘Overview-of-RCy3.Rmd’ using rmarkdown --- finished re-building ‘Overview-of-RCy3.Rmd’ --- re-building ‘Phylogenetic-trees.Rmd’ using rmarkdown --- finished re-building ‘Phylogenetic-trees.Rmd’ --- re-building ‘Upgrading-existing-scripts.Rmd’ using rmarkdown --- finished re-building ‘Upgrading-existing-scripts.Rmd’ SUMMARY: processing the following files failed: ‘Identifier-mapping.Rmd’ ‘Identifier-mapping.Rmd’ Error: Vignette re-building failed. Execution halted