############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data rain ### ############################################################################## ############################################################################## * checking for file ‘rain/DESCRIPTION’ ... OK * preparing ‘rain’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ...sh: line 1: 90030 Illegal instruction: 4 '/Library/Frameworks/R.framework/Resources/bin/Rscript' --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)" > '/tmp/RtmpNeBf4N/xshell15f4618f5e810' 2>&1 ERROR --- re-building ‘rain.Rnw’ using Sweave Loading required package: lattice Loading required package: rain Loading required package: gmp Attaching package: ‘gmp’ The following objects are masked from ‘package:base’: %*%, apply, crossprod, matrix, tcrossprod Loading required package: multtest Loading required package: BiocGenerics Loading required package: parallel Attaching package: ‘BiocGenerics’ The following objects are masked from ‘package:parallel’: clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following objects are masked from ‘package:gmp’: which.max, which.min The following objects are masked from ‘package:stats’: IQR, mad, sd, var, xtabs The following objects are masked from ‘package:base’: Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which.max, which.min Loading required package: Biobase Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. *** caught illegal operation *** address 0x10f4d5f6d, cause 'illegal opcode' Traceback: 1: as.bigz(matrix(c(1, rep(0, ceiling(maxval/2) - 1)), nrow = 1)) 2: harding(sequences[[i]], c(1 + relpeak[i]), cycl = TRUE) 3: umbrellaCirc(x, nr.series = 1, per, peak.border, type = 3, adjp.method = adjp.method, measure.sequence, verbose = verbose) 4: rain(measure, period = 24, deltat = 2, peak.border = c(0.1, 0.9), verbose = FALSE) 5: eval(expr, .GlobalEnv) 6: eval(expr, .GlobalEnv) 7: withVisible(eval(expr, .GlobalEnv)) 8: doTryCatch(return(expr), name, parentenv, handler) 9: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 10: tryCatchList(expr, classes, parentenv, handlers) 11: tryCatch(expr, error = function(e) { call <- conditionCall(e) if (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) call <- sys.call(-4L) dcall <- deparse(call)[1L] prefix <- paste("Error in", dcall, ": ") LONG <- 75L sm <- strsplit(conditionMessage(e), "\n")[[1L]] w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w)) w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type = "b") if (w > LONG) prefix <- paste0(prefix, "\n ") } else prefix <- "Error : " msg <- paste0(prefix, conditionMessage(e), "\n") .Internal(seterrmessage(msg[1L])) if (!silent && isTRUE(getOption("show.error.messages"))) { cat(msg, file = outFile) .Internal(printDeferredWarnings()) } invisible(structure(msg, class = "try-error", condition = e))}) 12: try(withVisible(eval(expr, .GlobalEnv)), silent = TRUE) 13: evalFunc(ce, options) 14: tryCatchList(expr, classes, parentenv, handlers) 15: tryCatch(evalFunc(ce, options), finally = { cat("\n") sink()}) 16: driver$runcode(drobj, chunk, chunkopts) 17: utils::Sweave(...) 18: engine$weave(file, quiet = quiet, encoding = enc) 19: doTryCatch(return(expr), name, parentenv, handler) 20: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 21: tryCatchList(expr, classes, parentenv, handlers) 22: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) } outputs <- c(outputs, output)}, error = function(e) { thisOK <<- FALSE fails <<- c(fails, file) message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))}) 23: tools::buildVignettes(dir = ".", tangle = TRUE) An irrecoverable exception occurred. R is aborting now ...