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BioC 3.5: INSTALL report for csaw on malbec2

This page was generated on 2017-08-16 13:16:10 -0400 (Wed, 16 Aug 2017).

Package 300/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
csaw 1.10.0
Aaron Lun
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/csaw
Last Changed Rev: 129126 / Revision: 131943
Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 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
veracruz2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: csaw
Version: 1.10.0
Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD INSTALL csaw
StartedAt: 2017-08-15 18:09:38 -0400 (Tue, 15 Aug 2017)
EndedAt: 2017-08-15 18:10:09 -0400 (Tue, 15 Aug 2017)
EllapsedTime: 30.6 seconds
RetCode: 0
Status:  OK 

Command output

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###
### Running command:
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###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD INSTALL csaw
###
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* installing to library ‘/home/biocbuild/bbs-3.5-bioc/R/library’
* installing *source* package ‘csaw’ ...
** libs
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c annotator.cpp -o annotator.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c bam_utils.cpp -o bam_utils.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c best_in_cluster.cpp -o best_in_cluster.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c check_bimodality.cpp -o check_bimodality.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c correlate_reads.cpp -o correlate_reads.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c find_maxima.cpp -o find_maxima.o
find_maxima.cpp: In function ‘SEXPREC* find_maxima(SEXP, SEXP, SEXP, SEXP, SEXP)’:
find_maxima.cpp:90:22: warning: ‘is_max’ may be used uninitialized in this function [-Wmaybe-uninitialized]
    while (right_copy >= is_max) { 
                      ^
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c get_cluster_stats.cpp -o get_cluster_stats.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c get_profile.cpp -o get_profile.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c get_rle_counts.cpp -o get_rle_counts.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c init.cpp -o init.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c merge_windows.cpp -o merge_windows.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c pair_reads.cpp -o pair_reads.o
g++  -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG  -I"/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.5-bioc/R/library/zlibbioc/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c single_reads.cpp -o single_reads.o
g++ -shared -L/home/biocbuild/bbs-3.5-bioc/R/lib -L/usr/local/lib -o csaw.so annotator.o bam_utils.o best_in_cluster.o check_bimodality.o correlate_reads.o find_maxima.o get_cluster_stats.o get_profile.o get_rle_counts.o init.o merge_windows.o pair_reads.o single_reads.o -L/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/lib -Wl,-rpath,/home/biocbuild/bbs-3.5-bioc/R/library/Rhtslib/lib -lhts -lz -pthread -L/home/biocbuild/bbs-3.5-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.5-bioc/R/library/csaw/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘csaw.Rnw’ 
** testing if installed package can be loaded
* DONE (csaw)