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BUILD BIN report for mitoODE on machv2

This page was generated on 2020-10-17 11:58:59 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE mitoODE PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1104/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
mitoODE 1.26.1
Gregoire Pau
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/mitoODE
Branch: RELEASE_3_11
Last Commit: e754290
Last Changed Date: 2020-08-10 07:02:33 -0400 (Mon, 10 Aug 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  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: mitoODE
Version: 1.26.1
Command: rm -rf mitoODE.buildbin-libdir && mkdir mitoODE.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh mitoODE_1.26.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R mitoODE.buildbin-libdir
StartedAt: 2020-10-17 07:30:35 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 07:31:00 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 24.7 seconds
RetCode: 0
Status:  OK 
PackageFile: mitoODE_1.26.1.tgz
PackageFileSize: 433.9 KiB

Command output

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### Running command:
###
###   rm -rf mitoODE.buildbin-libdir && mkdir mitoODE.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh mitoODE_1.26.1.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R mitoODE.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=mitoODE.buildbin-libdir mitoODE_1.26.1.tar.gz'
>>>>>>> 

* installing *source* package ‘mitoODE’ ...
** 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 rksolve.c -o rksolve.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 mitoODE.so rksolve.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.11-bioc/meat/mitoODE.buildbin-libdir/00LOCK-mitoODE/00new/mitoODE/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
Warning: Package 'mitoODE' is deprecated and will be removed from Bioconductor
  version 3.12
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
Warning: Package 'mitoODE' is deprecated and will be removed from Bioconductor
  version 3.12
** testing if installed package keeps a record of temporary installation path
* DONE (mitoODE)


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