############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 cBioPortalData ### ############################################################################## ############################################################################## * checking for file ‘cBioPortalData/DESCRIPTION’ ... OK * preparing ‘cBioPortalData’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘cBioPortalData.Rmd’ using rmarkdown Quitting from cBioPortalData.Rmd:118-122 [cbiodatapack] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `.validStudyID()`: ! Study identifier not found in look up table --- Backtrace: ▆ 1. └─cBioPortalData::cBioDataPack("laml_tcga", ask = FALSE) 2. └─cBioPortalData::downloadStudy(...) 3. └─cBioPortalData:::.validStudyID(cancer_study_id) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'cBioPortalData.Rmd' failed with diagnostics: Study identifier not found in look up table --- failed re-building ‘cBioPortalData.Rmd’ --- re-building ‘cBioPortalDataErrors.Rmd’ using rmarkdown --- finished re-building ‘cBioPortalDataErrors.Rmd’ --- re-building ‘cBioPortalRClient.Rmd’ using rmarkdown --- finished re-building ‘cBioPortalRClient.Rmd’ --- re-building ‘cgdsrMigration.Rmd’ using rmarkdown --- finished re-building ‘cgdsrMigration.Rmd’ SUMMARY: processing the following file failed: ‘cBioPortalData.Rmd’ Error: Vignette re-building failed. Execution halted