############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data PCAtools ### ############################################################################## ############################################################################## * checking for file ‘PCAtools/DESCRIPTION’ ... OK * preparing ‘PCAtools’: * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘PCAtools.Rmd’ using rmarkdown Quitting from PCAtools.Rmd:161-212 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: ! vector memory limit of 64.0 Gb reached, see mem.maxVSize() --- Backtrace: ▆ 1. ├─GEOquery::getGEO("GSE2990", GSEMatrix = TRUE, getGPL = FALSE) 2. │ └─GEOquery:::getAndParseGSEMatrices(...) 3. │ └─GEOquery:::parseGSEMatrix(...) 4. │ └─... %>% tidyr::spread(k, v) 5. ├─tidyr::spread(., k, v) 6. ├─base::unique(.) 7. ├─dplyr::mutate(., v = paste0(trimws(v), collapse = ";")) 8. ├─dplyr::group_by(., accession, k) 9. ├─dplyr::filter(., !is.na(v)) 10. ├─dplyr::select(., -characteristics) 11. ├─dplyr::mutate(., k = paste(k, characteristics, sep = ":")) 12. ├─tidyr::separate(...) 13. └─tidyr:::separate.data.frame(...) 14. └─tidyr:::str_separate(...) 15. └─tidyr:::str_split_fixed(...) 16. └─tidyr:::simplifyPieces(pieces, n, fill == "left") ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'PCAtools.Rmd' failed with diagnostics: vector memory limit of 64.0 Gb reached, see mem.maxVSize() --- failed re-building ‘PCAtools.Rmd’ SUMMARY: processing the following file failed: ‘PCAtools.Rmd’ Error: Vignette re-building failed. Execution halted