Back to Multiple platform build/check report for BioC 3.12
ABCDEF[G]HIJKLMNOPQRSTUVWXYZ

BUILD BIN report for GeneSelectMMD on merida1

This page was generated on 2021-05-06 12:35:05 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the GeneSelectMMD package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 699/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GeneSelectMMD 2.34.0  (landing page)
Weiliang Qiu
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/GeneSelectMMD
Branch: RELEASE_3_12
Last Commit: d1f684c
Last Changed Date: 2020-10-27 10:35:25 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version exists in internal repository
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version exists in internal repository

Summary

Package: GeneSelectMMD
Version: 2.34.0
Command: rm -rf GeneSelectMMD.buildbin-libdir && mkdir GeneSelectMMD.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GeneSelectMMD_2.34.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GeneSelectMMD.buildbin-libdir
StartedAt: 2021-05-06 08:43:49 -0400 (Thu, 06 May 2021)
EndedAt: 2021-05-06 08:44:42 -0400 (Thu, 06 May 2021)
EllapsedTime: 52.8 seconds
RetCode: 0
Status:   OK  
PackageFile: GeneSelectMMD_2.34.0.tgz
PackageFileSize: 453.5 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf GeneSelectMMD.buildbin-libdir && mkdir GeneSelectMMD.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh GeneSelectMMD_2.34.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R GeneSelectMMD.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=GeneSelectMMD.buildbin-libdir GeneSelectMMD_2.34.0.tar.gz'
>>>>>>> 

* installing *source* package ‘GeneSelectMMD’ ...
** using staged installation
** libs
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c GeneSelectMMD_init.c -o GeneSelectMMD_init.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c Qfunc.f -o Qfunc.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c blas.f -o blas.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c isnan.c -o isnan.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c lbfgsb.f -o lbfgsb.o
lbfgsb.f:1409:0:

      +                 tu,tl,wmc,wmp,wmw,ddot,tj,tj0,neggi,sbgnrm,
 
Warning: ‘tu’ may be used uninitialized in this function [-Wmaybe-uninitialized]
lbfgsb.f:1482:0:

                t(nbreak) = tl/(-neggi)
 
Warning: ‘tl’ may be used uninitialized in this function [-Wmaybe-uninitialized]
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c lbfgsbDriver.f -o lbfgsbDriver.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c linpack.f -o linpack.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c llkhFun.f -o llkhFun.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c myTtest.f -o myTtest.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c paraEstLoop.f -o paraEstLoop.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c pt.c -o pt.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c timer.f -o timer.o
gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c wiFun.f -o wiFun.o
clang -mmacosx-version-min=10.13 -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 GeneSelectMMD.so GeneSelectMMD_init.o Qfunc.o blas.o isnan.o lbfgsb.o lbfgsbDriver.o linpack.o llkhFun.o myTtest.o paraEstLoop.o pt.o timer.o wiFun.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: could not create compact unwind for _lbfgsbdriver_: stack subq instruction is too different from dwarf stack size
installing to /Users/biocbuild/bbs-3.12-bioc/meat/GeneSelectMMD.buildbin-libdir/00LOCK-GeneSelectMMD/00new/GeneSelectMMD/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 from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (GeneSelectMMD)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgcc_s.1.dylib" "GeneSelectMMD.buildbin-libdir/GeneSelectMMD/libs/GeneSelectMMD.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgfortran.5.dylib" "GeneSelectMMD.buildbin-libdir/GeneSelectMMD/libs/GeneSelectMMD.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libquadmath.0.dylib" "GeneSelectMMD.buildbin-libdir/GeneSelectMMD/libs/GeneSelectMMD.so"
install_name_tool -change "/usr/local/gfortran/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgfortran.5.dylib" "GeneSelectMMD.buildbin-libdir/GeneSelectMMD/libs/GeneSelectMMD.so"
install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libquadmath.0.dylib" "GeneSelectMMD.buildbin-libdir/GeneSelectMMD/libs/GeneSelectMMD.so"