############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data TCGAWorkflow ### ############################################################################## ############################################################################## * checking for file ‘TCGAWorkflow/DESCRIPTION’ ... OK * preparing ‘TCGAWorkflow’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘TCGAWorkflow.Rmd’ using rmarkdown Quitting from lines 539-553 [unnamed-chunk-10] (TCGAWorkflow.Rmd) Error: processing vignette 'TCGAWorkflow.Rmd' failed with diagnostics: 'getURL()' failed: URL: https://api.gdc.cancer.gov/files/?pretty=true&expand=cases,cases.project,center,analysis&size=1219&filters=%7B%22op%22:%22and%22,%22content%22:[%7B%22op%22:%22in%22,%22content%22:%7B%22field%22:%22cases.project.project_id%22,%22value%22:[%22TCGA-GBM%22]%7D%7D,%7B%22op%22:%22in%22,%22content%22:%7B%22field%22:%22files.data_category%22,%22value%22:[%22Clinical%22]%7D%7D]%7D&format=JSON error: OpenSSL SSL_read: error:0A000126:SSL routines::unexpected eof while reading, errno 0 --- failed re-building ‘TCGAWorkflow.Rmd’ SUMMARY: processing the following file failed: ‘TCGAWorkflow.Rmd’ Error: Vignette re-building failed. Execution halted