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BioC 3.3: CHECK report for genoset on linux2.bioconductor.org

This page was generated on 2015-10-27 12:11:56 -0400 (Tue, 27 Oct 2015).

Package 428/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
genoset 1.25.0
Peter M. Haverty
Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/genoset
Last Changed Rev: 109592 / Revision: 109948
Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015)
linux2.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  ERROR  OK [ ERROR ]
windows2.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64  ERROR  OK  ERROR  ERROR 

Summary

Package: genoset
Version: 1.25.0
Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings genoset_1.25.0.tar.gz
StartedAt: 2015-10-27 04:16:36 -0400 (Tue, 27 Oct 2015)
EndedAt: 2015-10-27 04:16:45 -0400 (Tue, 27 Oct 2015)
EllapsedTime: 8.5 seconds
RetCode: 1
Status:  ERROR 
CheckDir: genoset.Rcheck
Warnings: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings genoset_1.25.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/genoset.Rcheck’
* using R Under development (unstable) (2015-09-09 r69333)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘genoset/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘genoset’ version ‘1.25.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘genoset’ can be installed ... [5s/5s] ERROR
Installation failed.
See ‘/home/biocbuild/bbs-3.3-bioc/meat/genoset.Rcheck/00install.out’ for details.
* DONE

Status: 1 ERROR
See
  ‘/home/biocbuild/bbs-3.3-bioc/meat/genoset.Rcheck/00check.log’
for details.

genoset.Rcheck/00install.out:

* installing *source* package ‘genoset’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c bounds.c -o bounds.o
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c init.c -o init.o
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c rangeSummaries.c -o rangeSummaries.o
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c utils.c -o utils.o
gcc -std=gnu99 -shared -L/home/biocbuild/bbs-3.3-bioc/R/lib -L/usr/local/lib -o genoset.so bounds.o init.o rangeSummaries.o utils.o -L/home/biocbuild/bbs-3.3-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.3-bioc/meat/genoset.Rcheck/genoset/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Error : class "GIntervalTree" is not exported by 'namespace:GenomicRanges'
ERROR: lazy loading failed for package ‘genoset’
* removing ‘/home/biocbuild/bbs-3.3-bioc/meat/genoset.Rcheck/genoset’