############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 CBN2Path ### ############################################################################## ############################################################################## * checking for file ‘CBN2Path/DESCRIPTION’ ... OK * preparing ‘CBN2Path’: * checking DESCRIPTION meta-information ... OK * cleaning src * running ‘cleanup’ * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘CBN2Path.Rmd’ using rmarkdown /usr/bin/tar: This does not look like a tar archive gzip: stdin: not in gzip format /usr/bin/tar: Child returned status 1 /usr/bin/tar: Error is not recoverable: exiting now Quitting from CBN2Path.Rmd:54-64 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `GDCprepare()`: ! I couldn't find all the files from the query. Please check if the directory parameter is right or `GDCdownload` downloaded the samples. --- Backtrace: ▆ 1. └─CBN2Path::getRawTCGAData("TCGA-BLCA") 2. └─TCGAbiolinks::GDCprepare(query) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'CBN2Path.Rmd' failed with diagnostics: I couldn't find all the files from the query. Please check if the directory parameter is right or `GDCdownload` downloaded the samples. --- failed re-building ‘CBN2Path.Rmd’ SUMMARY: processing the following file failed: ‘CBN2Path.Rmd’ Error: Vignette re-building failed. Execution halted