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BUILD BIN report for MACPET on merida2

This page was generated on 2019-04-09 13:36:30 -0400 (Tue, 09 Apr 2019).

Package 887/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MACPET 1.3.3
Ioannis Vardaxis
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/MACPET
Branch: master
Last Commit: 8bdde99
Last Changed Date: 2019-03-31 05:30:40 -0400 (Sun, 31 Mar 2019)
malbec2 Linux (Ubuntu 18.04.2 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
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: MACPET
Version: 1.3.3
Command: rm -rf MACPET.buildbin-libdir && mkdir MACPET.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh MACPET_1.3.3.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R MACPET.buildbin-libdir
StartedAt: 2019-04-09 05:45:08 -0400 (Tue, 09 Apr 2019)
EndedAt: 2019-04-09 05:46:33 -0400 (Tue, 09 Apr 2019)
EllapsedTime: 85.8 seconds
RetCode: 0
Status:  OK 
PackageFile: MACPET_1.3.3.tgz
PackageFileSize: 1.21 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf MACPET.buildbin-libdir && mkdir MACPET.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh MACPET_1.3.3.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R MACPET.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=MACPET.buildbin-libdir MACPET_1.3.3.tar.gz'
>>>>>>> 

* installing *source* package ‘MACPET’ ...
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/bigmemory/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
RcppExports.cpp:46:1: warning: unused variable 'nprot' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:46:1: warning: unused variable 'stop_sym' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:85:1: warning: unused variable 'nprot' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:85:1: warning: unused variable 'stop_sym' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:125:1: warning: unused variable 'nprot' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:125:1: warning: unused variable 'stop_sym' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:162:1: warning: unused variable 'nprot' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:162:1: warning: unused variable 'stop_sym' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:201:1: warning: unused variable 'nprot' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:201:1: warning: unused variable 'stop_sym' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:238:1: warning: unused variable 'stop_sym' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:238:1: warning: unused variable 'nprot' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:275:1: warning: unused variable 'nprot' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:275:1: warning: unused variable 'stop_sym' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:311:1: warning: unused variable 'stop_sym' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:311:1: warning: unused variable 'nprot' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:351:1: warning: unused variable 'nprot' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:351:1: warning: unused variable 'stop_sym' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:389:1: warning: unused variable 'stop_sym' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:389:1: warning: unused variable 'nprot' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:428:1: warning: unused variable 'stop_sym' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:428:1: warning: unused variable 'nprot' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:465:1: warning: unused variable 'nprot' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:465:1: warning: unused variable 'stop_sym' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:504:1: warning: unused variable 'stop_sym' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:504:1: warning: unused variable 'nprot' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:544:1: warning: unused variable 'stop_sym' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
RcppExports.cpp:544:1: warning: unused variable 'nprot' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:579:1: warning: unused variable 'nprot' [-Wunused-variable]
BEGIN_RCPP
^
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:32:9: note: expanded from macro 'BEGIN_RCPP'
    int nprot = 0;                                                                               \
        ^
RcppExports.cpp:579:1: warning: unused variable 'stop_sym' [-Wunused-variable]
/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include/Rcpp/macros/macros.h:36:17: note: expanded from macro 'BEGIN_RCPP'
    static SEXP stop_sym = Rf_install("stop");                                                   \
                ^
30 warnings generated.
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/bigmemory/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c Stage_0_FastqFilteringSubFunctions.cpp -o Stage_0_FastqFilteringSubFunctions.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/bigmemory/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c Stage_3_PeakFinderSubFunctions.cpp -o Stage_3_PeakFinderSubFunctions.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/bigmemory/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include   -fPIC  -Wall -g -O2  -c Stage_4_InteractionsSubFunctions.cpp -o Stage_4_InteractionsSubFunctions.o
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o MACPET.so RcppExports.o Stage_0_FastqFilteringSubFunctions.o Stage_3_PeakFinderSubFunctions.o Stage_4_InteractionsSubFunctions.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/MACPET.buildbin-libdir/MACPET/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (MACPET)


>>>>>>> 
>>>>>>> FIXING LINKS FOR MACPET.buildbin-libdir/MACPET/libs//MACPET.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgcc_s.1.dylib" "MACPET.buildbin-libdir/MACPET/libs//MACPET.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "MACPET.buildbin-libdir/MACPET/libs//MACPET.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.5.2.dylib" "MACPET.buildbin-libdir/MACPET/libs//MACPET.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "MACPET.buildbin-libdir/MACPET/libs//MACPET.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "MACPET.buildbin-libdir/MACPET/libs//MACPET.so"