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BUILD report for branchpointer on celaya2

This page was generated on 2019-04-09 13:18:00 -0400 (Tue, 09 Apr 2019).

Package 182/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
branchpointer 1.9.0
Beth Signal
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/branchpointer
Branch: master
Last Commit: 63d1418
Last Changed Date: 2018-10-30 11:54:37 -0400 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK [ ERROR ] skipped  skipped 
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: branchpointer
Version: 1.9.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data branchpointer
StartedAt: 2019-04-08 22:26:14 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 22:28:14 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 120.1 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

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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 branchpointer
###
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* checking for file ‘branchpointer/DESCRIPTION’ ... OK
* preparing ‘branchpointer’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘branchpointer.Rnw’ using knitr
Loading required package: BSgenome
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, 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: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: Biostrings
Loading required package: XVector

Attaching package: 'Biostrings'

The following object is masked from 'package:base':

    strsplit

Loading required package: rtracklayer
Loading required package: caret
Loading required package: lattice
Loading required package: ggplot2
Registered S3 methods overwritten by 'ggplot2':
  method         from 
  [.quosures     rlang
  c.quosures     rlang
  print.quosures rlang
filtering for SNPs in branchpoint windows
Quitting from lines 220-227 (branchpointer.Rnw) 
Error: processing vignette 'branchpointer.Rnw' failed with diagnostics:
biomaRt error: looks like we're connecting to incompatible version of BioMart suite.
--- failed re-building ‘branchpointer.Rnw’

SUMMARY: processing the following file failed:
  ‘branchpointer.Rnw’

Error: Vignette re-building failed.
Execution halted