############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data RGSEA ### ############################################################################## ############################################################################## * checking for file ‘RGSEA/DESCRIPTION’ ... OK * preparing ‘RGSEA’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘RGSEA.Rnw’ using knitr Quitting from RGSEA.Rnw:83-87 [RGSEA-DOWNLOAD] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `h()`: ! error in evaluating the argument 'x' in selecting a method for function 'colnames': error in evaluating the argument 'object' in selecting a method for function 'Table': HTTP 403 Forbidden. --- Backtrace: x 1. +-GEOquery::GDS2eSet(getGEO("GDS4100")) 2. | +-base::grep("GSM", colnames(Table(GDS))) 3. | | \-base::is.factor(x) 4. | +-BiocGenerics::colnames(Table(GDS)) 5. | \-GEOquery::Table(GDS) 6. +-GEOquery::getGEO("GDS4100") 7. | \-GEOquery::getGEOfile(GEO, destdir = destdir, AnnotGPL = AnnotGPL) 8. | \-GEOquery:::downloadFile(myurl, destfile, mode) 9. | \-base::tryCatch(...) 10. | \-base (local) tryCatchList(expr, classes, parentenv, handlers) 11. | \-base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 12. | \-value[[3L]](cond) 13. | \-base::message(e) 14. | +-base::withRestarts(...) 15. | | \-base (local) withOneRestart(expr, restarts[[1L]]) 16. | | \-base (local) doWithOneRestart(return(expr), restart) 17. | \-base::signalCondition(cond) 18. +-base (local) ``(``) 19. \-base::.handleSimpleError(...) 20. \-base (local) h(simpleError(msg, call)) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'RGSEA.Rnw' failed with diagnostics: error in evaluating the argument 'x' in selecting a method for function 'colnames': error in evaluating the argument 'object' in selecting a method for function 'Table': HTTP 403 Forbidden. --- failed re-building ‘RGSEA.Rnw’ SUMMARY: processing the following file failed: ‘RGSEA.Rnw’ Error: Vignette re-building failed. Execution halted