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This page was generated on 2021-10-15 15:06:15 -0400 (Fri, 15 Oct 2021).

BUILD results for pcot2 on tokay2

To the developers/maintainers of the pcot2 package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/pcot2.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
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raw results

Package 1360/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
pcot2 1.60.0  (landing page)
Sarah Song
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/pcot2
git_branch: RELEASE_3_13
git_last_commit: 5b99dfb
git_last_commit_date: 2021-05-19 11:37:52 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    ERROR  skipped
tokay2Windows Server 2012 R2 Standard / x64  OK    ERROR  skippedskipped
machv2macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: pcot2
Version: 1.60.0
Command: chmod a+r pcot2 -R && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data pcot2
StartedAt: 2021-10-14 16:41:48 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 16:42:26 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 38.4 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r pcot2 -R && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data pcot2
###
##############################################################################
##############################################################################


* checking for file 'pcot2/DESCRIPTION' ... OK
* preparing 'pcot2':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'pcot2.Rnw' using Sweave
Loading required package: Biobase
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, 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

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: amap
Warning: Package 'pcot2' is deprecated and will be removed from Bioconductor
  version 3.14
Loading required package: AnnotationDbi
Loading required package: stats4
Loading required package: IRanges
Loading required package: S4Vectors

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    I, expand.grid, unname


Attaching package: 'IRanges'

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

    windows

Loading required package: org.Hs.eg.db



Error: processing vignette 'pcot2.Rnw' failed with diagnostics:
 chunk 7 
Error in library(KEGG.db) : there is no package called 'KEGG.db'

--- failed re-building 'pcot2.Rnw'

SUMMARY: processing the following file failed:
  'pcot2.Rnw'

Error: Vignette re-building failed.
Execution halted