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This page was generated on 2021-10-26 14:07:41 -0400 (Tue, 26 Oct 2021).

BUILD BIN results for biovizBase on merida1

To the developers/maintainers of the biovizBase package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biovizBase.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 196/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biovizBase 1.41.0  (landing page)
Michael Lawrence
Snapshot Date: 2021-10-25 14:50:11 -0400 (Mon, 25 Oct 2021)
git_url: https://git.bioconductor.org/packages/biovizBase
git_branch: master
git_last_commit: 5360f11
git_last_commit_date: 2021-05-19 11:50:05 -0400 (Wed, 19 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  

Summary

Package: biovizBase
Version: 1.41.0
Command: rm -rf biovizBase.buildbin-libdir && mkdir biovizBase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh biovizBase_1.41.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R biovizBase.buildbin-libdir
StartedAt: 2021-10-26 11:12:09 -0400 (Tue, 26 Oct 2021)
EndedAt: 2021-10-26 11:13:52 -0400 (Tue, 26 Oct 2021)
EllapsedTime: 103.4 seconds
RetCode: 0
Status:   OK  
PackageFile: biovizBase_1.41.0.tgz
PackageFileSize: 2.633 MiB

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf biovizBase.buildbin-libdir && mkdir biovizBase.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh biovizBase_1.41.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R biovizBase.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=biovizBase.buildbin-libdir biovizBase_1.41.0.tar.gz'
>>>>>>> 

* installing *source* package ‘biovizBase’ ...
** 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 R_init_biovizBase.c -o R_init_biovizBase.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c bin_offsets.c -o bin_offsets.o
bin_offsets.c:57:15: warning: passing 'Rbyte *' (aka 'unsigned char *') to parameter of type 'const char *' converts between pointers to integer types with different sign [-Wpointer-sign]
  if (strncmp(b, "BAI\1", 4))
              ^
/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/string.h:84:26: note: passing argument to parameter '__s1' here
int      strncmp(const char *__s1, const char *__s2, size_t __n);
                             ^
1 warning 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 biovizBase.so R_init_biovizBase.o bin_offsets.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.14-bioc/meat/biovizBase.buildbin-libdir/00LOCK-biovizBase/00new/biovizBase/libs
** R
** data
*** moving datasets to lazyload DB
** 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 (biovizBase)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgcc_s.1.dylib" "biovizBase.buildbin-libdir/biovizBase/libs/biovizBase.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgfortran.5.dylib" "biovizBase.buildbin-libdir/biovizBase/libs/biovizBase.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libquadmath.0.dylib" "biovizBase.buildbin-libdir/biovizBase/libs/biovizBase.so"