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BUILD BIN report for Starr on machv2

This page was generated on 2020-10-17 11:59:43 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE Starr PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1743/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Starr 1.44.0
Benedikt Zacher
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/Starr
Branch: RELEASE_3_11
Last Commit: e5b1676
Last Changed Date: 2020-04-27 14:19:50 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  ERROR 
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  ERROR  NA 
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  ERROR [ OK ]

Summary

Package: Starr
Version: 1.44.0
Command: rm -rf Starr.buildbin-libdir && mkdir Starr.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Starr_1.44.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Starr.buildbin-libdir
StartedAt: 2020-10-17 08:03:55 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 08:04:27 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 32.0 seconds
RetCode: 0
Status:  OK 
PackageFile: Starr_1.44.0.tgz
PackageFileSize: 1.439 MiB

Command output

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###
### Running command:
###
###   rm -rf Starr.buildbin-libdir && mkdir Starr.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh Starr_1.44.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R Starr.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=Starr.buildbin-libdir Starr_1.44.0.tar.gz'
>>>>>>> 

* installing *source* package ‘Starr’ ...
** using staged installation
creating cache ./config.cache
checking how to run the C preprocessor... cc -E
checking for main in -lz... yes
checking for zlib.h... yes
checking if zlib version >= 1.1.3... yes
updating cache ./config.cache
creating ./config.status
creating src/Makevars
** libs
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DHAVE_ZLIB=1   -I/usr/local/include   -fPIC  -Wall -g -O2  -c ahocorasick.c -o ahocorasick.o
ahocorasick.c:8:1: warning: unused function 'kseq_rewind' [-Wunused-function]
KSEQ_INIT(gzFile, gzread)
^
./kseq.h:220:2: note: expanded from macro 'KSEQ_INIT'
        __KSEQ_BASIC(type_t)                                            \
        ^
./kseq.h:152:21: note: expanded from macro '__KSEQ_BASIC'
        static inline void kseq_rewind(kseq_t *ks)                                                      \
                           ^
1 warning generated.
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DHAVE_ZLIB=1   -I/usr/local/include   -fPIC  -Wall -g -O2  -c collect.c -o collect.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DHAVE_ZLIB=1   -I/usr/local/include   -fPIC  -Wall -g -O2  -c rm_small_peak.c -o rm_small_peak.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DHAVE_ZLIB=1   -I/usr/local/include   -fPIC  -Wall -g -O2  -c sort_by_genomic.c -o sort_by_genomic.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 Starr.so ahocorasick.o collect.o rm_small_peak.o sort_by_genomic.o -lz -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.11-bioc/meat/Starr.buildbin-libdir/00LOCK-Starr/00new/Starr/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 (Starr)


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