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This page was generated on 2021-10-13 15:05:57 -0400 (Wed, 13 Oct 2021).

BUILD BIN results for MANOR on machv2

To the developers/maintainers of the MANOR package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MANOR.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 1027/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MANOR 1.64.0  (landing page)
Pierre Neuvial
Snapshot Date: 2021-10-12 04:50:13 -0400 (Tue, 12 Oct 2021)
git_url: https://git.bioconductor.org/packages/MANOR
git_branch: RELEASE_3_13
git_last_commit: 6c2e394
git_last_commit_date: 2021-05-19 11:36:36 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: MANOR
Version: 1.64.0
Command: rm -rf MANOR.buildbin-libdir && mkdir MANOR.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh MANOR_1.64.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R MANOR.buildbin-libdir
StartedAt: 2021-10-13 02:44:35 -0400 (Wed, 13 Oct 2021)
EndedAt: 2021-10-13 02:45:29 -0400 (Wed, 13 Oct 2021)
EllapsedTime: 54.1 seconds
RetCode: 0
Status:   OK  
PackageFile: MANOR_1.64.0.tgz
PackageFileSize: 1.507 MiB

Command output

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###
### Running command:
###
###   rm -rf MANOR.buildbin-libdir && mkdir MANOR.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh MANOR_1.64.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R MANOR.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=MANOR.buildbin-libdir MANOR_1.64.0.tar.gz'
>>>>>>> 

* installing *source* package ‘MANOR’ ...
** 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 Rnem_arg.c -o Rnem_arg.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c Rnem_exe.c -o Rnem_exe.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c exememo.c -o exememo.o
exememo.c:40:13: warning: variable 'msg' is uninitialized when used here [-Wuninitialized]
    sprintf(msg, "Fatal: in %s, no memory for %s (%ld elements size %ld)\n",
            ^~~
/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/secure/_stdio.h:47:28: note: expanded from macro 'sprintf'
  __builtin___sprintf_chk (str, 0, __darwin_obsz(str), __VA_ARGS__)
                           ^~~
exememo.c:39:14: note: initialize the variable 'msg' to silence this warning
    char* msg;
             ^
              = NULL
1 warning generated.
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c nem_alg.c -o nem_alg.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c nem_hlp.c -o nem_hlp.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c nem_mod.c -o nem_mod.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c nem_nei.c -o nem_nei.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c nem_rnd.c -o nem_rnd.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c nem_ver.c -o nem_ver.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c registerDynamicSymbols.c -o registerDynamicSymbols.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 MANOR.so Rnem_arg.o Rnem_exe.o exememo.o nem_alg.o nem_hlp.o nem_mod.o nem_nei.o nem_rnd.o nem_ver.o registerDynamicSymbols.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.13-bioc/meat/MANOR.buildbin-libdir/00LOCK-MANOR/00new/MANOR/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 (MANOR)


>>>>>>> 
>>>>>>> FIXING LINKS FOR MANOR.buildbin-libdir/MANOR/libs/MANOR.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" "MANOR.buildbin-libdir/MANOR/libs/MANOR.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libgfortran.5.dylib" "MANOR.buildbin-libdir/MANOR/libs/MANOR.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libquadmath.0.dylib" "MANOR.buildbin-libdir/MANOR/libs/MANOR.so"