Back to Multiple platform build/check report for BioC 3.11
ABCDEFGHIJKLMNOPQRS[T]UVWXYZ

BUILD BIN report for twilight on machv2

This page was generated on 2020-10-17 11:59:50 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE twilight PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1849/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
twilight 1.64.0
Stefanie Scheid
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/twilight
Branch: RELEASE_3_11
Last Commit: cbcbb04
Last Changed Date: 2020-04-27 14:10:21 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  NA 
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  WARNINGS [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: twilight
Version: 1.64.0
Command: rm -rf twilight.buildbin-libdir && mkdir twilight.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh twilight_1.64.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R twilight.buildbin-libdir
StartedAt: 2020-10-17 08:09:24 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 08:09:58 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 34.1 seconds
RetCode: 0
Status:  OK 
PackageFile: twilight_1.64.0.tgz
PackageFileSize: 973.5 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf twilight.buildbin-libdir && mkdir twilight.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh twilight_1.64.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R twilight.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=twilight.buildbin-libdir twilight_1.64.0.tar.gz'
>>>>>>> 

* installing *source* package ‘twilight’ ...
** 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 confidence.line.c -o confidence.line.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c correlation.c -o correlation.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c kstest.c -o kstest.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c sep.c -o sep.o
sep.c:70:16: warning: using floating point absolute value function 'fabs' when argument is of integer type [-Wabsolute-value]
          ix[randnum]=fabs(1-ix[randnum]);
                      ^
sep.c:70:16: note: use function 'abs' instead
          ix[randnum]=fabs(1-ix[randnum]);
                      ^~~~
                      abs
sep.c:97:20: warning: using floating point absolute value function 'fabs' when argument is of integer type [-Wabsolute-value]
              ix[randnum]=fabs(1-ix[randnum]);
                          ^
sep.c:97:20: note: use function 'abs' instead
              ix[randnum]=fabs(1-ix[randnum]);
                          ^~~~
                          abs
sep.c:116:19: warning: using floating point absolute value function 'fabs' when argument is of integer type [-Wabsolute-value]
      ix[randnum]=fabs(1-ix[randnum]);
                  ^
sep.c:116:19: note: use function 'abs' instead
      ix[randnum]=fabs(1-ix[randnum]);
                  ^~~~
                  abs
sep.c:143:16: warning: using floating point absolute value function 'fabs' when argument is of integer type [-Wabsolute-value]
          ix[randnum]=fabs(1-ix[randnum]);
                      ^
sep.c:143:16: note: use function 'abs' instead
          ix[randnum]=fabs(1-ix[randnum]);
                      ^~~~
                      abs
4 warnings generated.
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c twosample.perm.c -o twosample.perm.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c twosample.single.c -o twosample.single.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 twilight.so confidence.line.o correlation.o kstest.o sep.o twosample.perm.o twosample.single.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.11-bioc/meat/twilight.buildbin-libdir/00LOCK-twilight/00new/twilight/libs
** R
** data
** 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 (twilight)


>>>>>>> 
>>>>>>> FIXING LINKS FOR twilight.buildbin-libdir/twilight/libs/twilight.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" "twilight.buildbin-libdir/twilight/libs/twilight.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgfortran.5.dylib" "twilight.buildbin-libdir/twilight/libs/twilight.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libquadmath.0.dylib" "twilight.buildbin-libdir/twilight/libs/twilight.so"