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BioC 3.2: BUILD report for KEGGprofile on moscato1

This page was generated on 2016-04-23 10:18:36 -0700 (Sat, 23 Apr 2016).

Package 555/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
KEGGprofile 1.12.0
Shilin Zhao
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/KEGGprofile
Last Changed Rev: 109589 / Revision: 116712
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  OK [ ERROR ] skipped  skipped 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  ERROR  OK 

Summary

Package: KEGGprofile
Version: 1.12.0
Command: chmod a+r KEGGprofile -R && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data KEGGprofile
StartedAt: 2016-04-22 20:34:52 -0700 (Fri, 22 Apr 2016)
EndedAt: 2016-04-22 20:40:27 -0700 (Fri, 22 Apr 2016)
EllapsedTime: 335.0 seconds
RetCode: 1
Status:  ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r KEGGprofile -R && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data KEGGprofile
###
##############################################################################
##############################################################################


* checking for file 'KEGGprofile/DESCRIPTION' ... OK
* preparing 'KEGGprofile':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ...Warning: running command '"D:/biocbld/bbs-3.2-bioc/R/bin/x64/Rscript" --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)"' had status 1
 ERROR
Loading required package: DBI

KEGG.db contains mappings based on older data because the original
  resource was removed from the the public domain before the most
  recent update was produced. This package should now be considered
  deprecated and future versions of Bioconductor may not have it
  available.  Users who want more current data are encouraged to look
  at the KEGGREST or reactome.db packages

trying URL 'http://www.genome.jp/kegg-bin/download?entry=hsa04110&format=kgml'
Content type 'text/xml' length 200 bytes
==============================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================
downloaded 39 KB

Warning in download.file(paste("http://www.genome.jp/kegg-bin/download?entry=",  :
  downloaded length 40634 != reported length 200
trying URL 'http://www.genome.jp/kegg/pathway/hsa/hsa04110.png'
Content type 'image/png' length 32599 bytes (31 KB)
============
downloaded 8192 bytes

Warning in download.file(paste("http://www.genome.jp/kegg/pathway/", species,  :
  downloaded length 8192 != reported length 32599
trying URL 'http://www.genome.jp/kegg/pathway/map/map04110.png'
Content type 'image/png' length 30938 bytes (30 KB)
======
downloaded 4096 bytes

Warning in download.file(paste("http://www.genome.jp/kegg/pathway/map/",  :
  downloaded length 4096 != reported length 30938
trying URL 'http://www.genome.jp/kegg-bin/download?entry=hsa04110&format=kgml'
Content type 'text/xml' length 200 bytes
=============================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================================
downloaded 32 KB

Warning in download.file(paste("http://www.genome.jp/kegg-bin/download?entry=",  :
  downloaded length 33334 != reported length 200
trying URL 'http://www.genome.jp/kegg/pathway/hsa/hsa04110.png'
Content type 'image/png' length 32599 bytes (31 KB)
=========================
downloaded 16 KB

Warning in download.file(paste("http://www.genome.jp/kegg/pathway/", species,  :
  downloaded length 16384 != reported length 32599
trying URL 'http://www.genome.jp/kegg/pathway/map/map04110.png'
Content type 'image/png' length 30938 bytes (30 KB)
===================
downloaded 12 KB

Warning in download.file(paste("http://www.genome.jp/kegg/pathway/map/",  :
  downloaded length 12288 != reported length 30938

Error: processing vignette 'KEGGprofile.Rnw' failed with diagnostics:
 chunk 6 (label = Visualization-bg) 
Error : 1: Premature end of data in tag entry line 580
2: Premature end of data in tag pathway line 4

Execution halted