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BUILD BIN report for simpleaffy on celaya2

This page was generated on 2020-01-16 13:28:58 -0500 (Thu, 16 Jan 2020).

Package 1597/1818HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
simpleaffy 2.63.0
Crispin Miller
Snapshot Date: 2020-01-15 16:46:30 -0500 (Wed, 15 Jan 2020)
URL: https://git.bioconductor.org/packages/simpleaffy
Branch: master
Last Commit: 8b90eb1
Last Changed Date: 2019-10-29 13:34:33 -0500 (Tue, 29 Oct 2019)
malbec2 Linux (Ubuntu 18.04.3 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  OK 
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS [ OK ]

Summary

Package: simpleaffy
Version: 2.63.0
Command: rm -rf simpleaffy.buildbin-libdir && mkdir simpleaffy.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh simpleaffy_2.63.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R simpleaffy.buildbin-libdir
StartedAt: 2020-01-16 11:50:36 -0500 (Thu, 16 Jan 2020)
EndedAt: 2020-01-16 11:51:07 -0500 (Thu, 16 Jan 2020)
EllapsedTime: 30.3 seconds
RetCode: 0
Status:  OK 
PackageFile: simpleaffy_2.63.0.tgz
PackageFileSize: 773.4 KiB

Command output

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###
### Running command:
###
###   rm -rf simpleaffy.buildbin-libdir && mkdir simpleaffy.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh simpleaffy_2.63.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R simpleaffy.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=simpleaffy.buildbin-libdir simpleaffy_2.63.0.tar.gz'
>>>>>>> 

* installing *source* package ‘simpleaffy’ ...
** using staged installation
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c simpleaffy.c -o simpleaffy.o
simpleaffy.c:440:30: warning: incompatible pointer types passing 'FILE *' (aka 'struct __sFILE *') to parameter of type 'const char *' [-Wincompatible-pointer-types]
    if(gn >= ngrid) REprintf(stderr,"Really ouch! %d %d\n",gn,ends[gn]);
                             ^~~~~~
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:218:16: note: expanded from macro 'stderr'
#define stderr  __stderrp
                ^~~~~~~~~
/Library/Frameworks/R.framework/Resources/include/R_ext/Print.h:46:27: note: passing argument to parameter here
void REprintf(const char *, ...);
                          ^
1 warning generated.
clang -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 simpleaffy.so simpleaffy.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.11-bioc/meat/simpleaffy.buildbin-libdir/00LOCK-simpleaffy/00new/simpleaffy/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 (simpleaffy)


>>>>>>> 
>>>>>>> FIXING LINKS FOR simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.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" "simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libgfortran.3.dylib" "simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.5.2.dylib" "simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libreadline.dylib" "simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libquadmath.0.dylib" "simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so"