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BUILD BIN report for FlowSOM on machv2

This page was generated on 2020-10-17 11:58:29 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE FlowSOM PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 623/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
FlowSOM 1.20.0
Sofie Van Gassen
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/FlowSOM
Branch: RELEASE_3_11
Last Commit: 13887e0
Last Changed Date: 2020-04-27 14:45:50 -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  OK UNNEEDED, same version exists in internal repository
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  WARNINGS [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: FlowSOM
Version: 1.20.0
Command: rm -rf FlowSOM.buildbin-libdir && mkdir FlowSOM.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh FlowSOM_1.20.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R FlowSOM.buildbin-libdir
StartedAt: 2020-10-17 07:05:10 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 07:05:41 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 31.1 seconds
RetCode: 0
Status:  OK 
PackageFile: FlowSOM_1.20.0.tgz
PackageFileSize: 2.62 MiB

Command output

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###
### Running command:
###
###   rm -rf FlowSOM.buildbin-libdir && mkdir FlowSOM.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh FlowSOM_1.20.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R FlowSOM.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=FlowSOM.buildbin-libdir FlowSOM_1.20.0.tar.gz'
>>>>>>> 

* installing *source* package ‘FlowSOM’ ...
** 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 som.c -o som.o
som.c:37:18: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
        xdist += abs(tmp);
                 ^
som.c:37:18: note: use function 'fabs' instead
        xdist += abs(tmp);
                 ^~~
                 fabs
som.c:47:15: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
        tmp = abs(tmp);
              ^
som.c:47:15: note: use function 'fabs' instead
        tmp = abs(tmp);
              ^~~
              fabs
som.c:134:27: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
                change += abs(tmp);
                          ^
som.c:134:27: note: use function 'fabs' instead
                change += abs(tmp);
                          ^~~
                          fabs
3 warnings generated.
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 FlowSOM.so som.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.11-bioc/meat/FlowSOM.buildbin-libdir/00LOCK-FlowSOM/00new/FlowSOM/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 (FlowSOM)


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