genphen 1.8.0
Simo Kitanovski
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/genphen |
| Branch: RELEASE_3_7 |
| Last Commit: fdf75eb |
| Last Changed Date: 2018-04-30 10:35:41 -0400 (Mon, 30 Apr 2018) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | [ ERROR ] | skipped | | |
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | ERROR | skipped | skipped | |
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |  |
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### Running command:
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### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data genphen
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* checking for file ‘genphen/DESCRIPTION’ ... OK
* preparing ‘genphen’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
Loading required package: genphen
Loading required package: e1071
Loading required package: Biostrings
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: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, colMeans, colSums, colnames,
dirname, do.call, duplicated, eval, evalq, get, grep, grepl,
intersect, is.unsorted, lapply, lengths, mapply, match, mget,
order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind,
rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unsplit, which, which.max, which.min
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: ‘S4Vectors’
The following object is masked from ‘package:base’:
expand.grid
Loading required package: IRanges
Loading required package: XVector
Attaching package: ‘Biostrings’
The following object is masked from ‘package:base’:
strsplit
Loading required package: rstan
Loading required package: ggplot2
Loading required package: StanHeaders
rstan (Version 2.17.4, GitRev: 2e1f913d3ca3)
For execution on a local, multicore CPU with excess RAM we recommend calling
options(mc.cores = parallel::detectCores()).
To avoid recompilation of unchanged Stan programs, we recommend calling
rstan_options(auto_write = TRUE)
Loading required package: ranger
Loading required package: foreach
Loading required package: doParallel
Loading required package: iterators
Loading required package: knitr
Loading required package: ggrepel
Loading required package: reshape2
Loading required package: ape
Attaching package: ‘ape’
The following object is masked from ‘package:Biostrings’:
complement
Loading required package: xtable
Warning in stan_model(file = f.pkg, model_name = "model") :
StanHeaders version is ahead of rstan version; update to latest rstan
Warning in system(cmd, intern = !verbose) :
running command '/home/biocbuild/bbs-3.7-bioc/R/bin/R CMD SHLIB file7c4254d85d58.cpp 2> file7c4254d85d58.cpp.err.txt' had status 1
Error: processing vignette 'genphenManual.Rnw' failed with diagnostics:
chunk 1
Error in compileCode(f, code, language = language, verbose = verbose) :
Compilation ERROR, function(s)/method(s) not created! In file included from /home/biocbuild/bbs-3.7-bioc/R/library/BH/include/boost/config.hpp:39:0,
from /home/biocbuild/bbs-3.7-bioc/R/library/BH/include/boost/math/tools/config.hpp:13,
from /home/biocbuild/bbs-3.7-bioc/R/library/StanHeaders/include/stan/math/rev/core/var.hpp:7,
from /home/biocbuild/bbs-3.7-bioc/R/library/StanHeaders/include/stan/math/rev/core/gevv_vvv_vari.hpp:5,
from /home/biocbuild/bbs-3.7-bioc/R/library/StanHeaders/include/stan/math/rev/core.hpp:12,
from /home/biocbuild/bbs-3.7-bioc/R/library/StanHeaders/include/stan/math/rev/mat.hpp:4,
from /home/biocbuild/bbs-3.7-bioc/R/library/StanHeaders/include/stan/math.hpp:4,
from /home/biocbuild/bbs-3.7
Execution halted