networkBMA 1.8.0
Ka Yee Yeung
| Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/networkBMA | | Last Changed Rev: 95439 / Revision: 102249 | | Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 2014) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | NotNeeded | OK | WARNINGS | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | OK | OK |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | WARNINGS | OK |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | [ ERROR ] | skipped | skipped |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data networkBMA
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* checking for file ‘networkBMA/DESCRIPTION’ ... OK
* preparing ‘networkBMA’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ...sh: line 1: 29079 Segmentation fault: 11 '/Library/Frameworks/R.framework/Resources/bin/Rscript' --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)" > '/tmp/Rtmpml11z8/xshell6ae34f2eeb7' 2>&1
ERROR
Loading required package: BMA
Loading required package: survival
Loading required package: leaps
Loading required package: robustbase
Attaching package: ‘robustbase’
The following object is masked from ‘package:survival’:
heart
Loading required package: inline
Loading required package: Rcpp
Attaching package: ‘Rcpp’
The following object is masked from ‘package:inline’:
registerPlugin
Loading required package: RcppArmadillo
Loading required package: RcppEigen
Attaching package: ‘RcppEigen’
The following objects are masked from ‘package:RcppArmadillo’:
fastLm, fastLmPure
*** caught segfault ***
address 0x0, cause 'unknown'
Traceback:
1: FastScanBMA.g(x = x, y = y, prior.probs = prior.probs, OR = OR, g = gcur)
2: ScanBMA.g(x, y, prior.prob, control$OR, control$gCtrl, verbose)
3: ScanBMA(x = x, y = y, prior.prob = prob, control = control, verbose = verbose)
4: networkBMA(data = timeSeries[, -(1:2)], nTimePoints = length(unique(timeSeries$time)), prior.prob = reg.prob, nvar = 50, ordering = "bic1+prior", diff100 = TRUE, diff0 = TRUE)
5: eval(expr, envir, enclos)
6: eval(expr, .GlobalEnv)
7: withVisible(eval(expr, .GlobalEnv))
8: doTryCatch(return(expr), name, parentenv, handler)
9: tryCatchOne(expr, names, parentenv, handlers[[1L]])
10: tryCatchList(expr, classes, parentenv, handlers)
11: tryCatch(expr, error = function(e) { call <- conditionCall(e) if (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) call <- sys.call(-4L) dcall <- deparse(call)[1L] prefix <- paste("Error in", dcall, ": ") LONG <- 75L msg <- conditionMessage(e) sm <- strsplit(msg, "\n")[[1L]] w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w)) w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type = "b") if (w > LONG) prefix <- paste0(prefix, "\n ") } else prefix <- "Error : " msg <- paste0(prefix, conditionMessage(e), "\n") .Internal(seterrmessage(msg[1L])) if (!silent && identical(getOption("show.error.messages"), TRUE)) { cat(msg, file = stderr()) .Internal(printDeferredWarnings()) } invisible(structure(msg, class = "try-error", condition = e))})
12: try(withVisible(eval(expr, .GlobalEnv)), silent = TRUE)
13: evalFunc(ce, options)
14: tryCatchList(expr, classes, parentenv, handlers)
15: tryCatch(evalFunc(ce, options), finally = { cat("\n") sink()})
16: driver$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) find_vignette_product(name, by = "weave", engine = engine)}, error = function(e) { stop(gettextf("processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)), domain = NA, call. = FALSE)})
23: tools::buildVignettes(dir = ".", tangle = TRUE)
aborting ...