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BUILD report for triplex on malbec2

This page was generated on 2019-04-09 11:35:15 -0400 (Tue, 09 Apr 2019).

Package 1641/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
triplex 1.23.0
Jiri Hon
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/triplex
Branch: master
Last Commit: 3bce49e
Last Changed Date: 2018-10-30 11:54:31 -0400 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK [ ERROR ] skipped 
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  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: triplex
Version: 1.23.0
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data triplex
StartedAt: 2019-04-08 20:01:59 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 20:03:11 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 72.5 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data triplex
###
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* checking for file ‘triplex/DESCRIPTION’ ... OK
* preparing ‘triplex’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘triplex.Rnw’ using Sweave
Loading required package: S4Vectors
Loading required package: stats4
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


Attaching package: ‘S4Vectors’

The following object is masked from ‘package:base’:

    expand.grid

Loading required package: IRanges
Loading required package: XVector
Loading required package: Biostrings

Attaching package: ‘Biostrings’

The following object is masked from ‘package:base’:

    strsplit

NOTICE: There was no triplexes found with the given options.
TIP: Try to modify search options (p_value, min_score, etc.),
     for details see ?triplex.search.
Warning in triplex.search(seq, iso_pen = 2) :
  Default penalization options were changed. You should consider recalculation
			of P-value constants (mu, lambda, rn). For details see vignette.
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Loading required package: BSgenome
Loading required package: biomaRt
Loading required package: grid

Error: processing vignette 'triplex.Rnw' failed with diagnostics:
 chunk 30 
Error in getBM(c("ensembl_gene_id", "ensembl_transcript_id", "ensembl_exon_id",  : 
  The query to the BioMart webservice returned an invalid result: biomaRt expected a character string of length 1. 
Please report this on the support site at http://support.bioconductor.org

--- failed re-building ‘triplex.Rnw’

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

Error: Vignette re-building failed.
Execution halted