Shaolong Cao
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/DeMixT |
| Branch: RELEASE_3_10 |
| Last Commit: ada2dc5 |
| Last Changed Date: 2020-02-15 22:09:55 -0400 (Sat, 15 Feb 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:49:02 -0400 (Wed, 15 Apr 2020).
| Package 435/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| DeMixT 1.2.5 Shaolong Cao
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | [ OK ] | |
| Package: DeMixT |
| Version: 1.2.5 |
| Command: rm -rf DeMixT.buildbin-libdir && mkdir DeMixT.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DeMixT_1.2.5.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R DeMixT.buildbin-libdir |
| StartedAt: 2020-04-15 07:17:01 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 07:17:56 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 54.9 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: DeMixT_1.2.5.tgz |
| PackageFileSize: 4.342 MiB |
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### Running command:
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### rm -rf DeMixT.buildbin-libdir && mkdir DeMixT.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DeMixT_1.2.5.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R DeMixT.buildbin-libdir
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>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=DeMixT.buildbin-libdir DeMixT_1.2.5.tar.gz'
>>>>>>>
* installing *source* package ‘DeMixT’ ...
** using staged installation
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp -fPIC -Wall -g -O2 -c DeMixT.c -o DeMixT.o
DeMixT.c:265:28: warning: implicit declaration of function 'Rprintf' is invalid in C99 [-Wimplicit-function-declaration]
if (nHavepi != 1) Rprintf("Iteration %d: updating parameters\n", i+1);
^
DeMixT.c:481:21: warning: implicit declaration of function 'Rprintf' is invalid in C99 [-Wimplicit-function-declaration]
if (nHavepi != 1) Rprintf("There are %d normals and %d tumors\n", fNorm,intx);
^
2 warnings generated.
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c Profile_2D.cpp -o Profile_2D.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp -fPIC -Wall -g -O2 -c init.c -o init.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp -fPIC -Wall -g -O2 -c registerDynamicSymbol.c -o registerDynamicSymbol.o
clang++ -std=gnu++11 -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 DeMixT.so DeMixT.o Profile_2D.o RcppExports.o init.o registerDynamicSymbol.o -fopenmp -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.10-bioc/meat/DeMixT.buildbin-libdir/00LOCK-DeMixT/00new/DeMixT/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 (DeMixT)
>>>>>>>
>>>>>>> FIXING LINKS FOR DeMixT.buildbin-libdir/DeMixT/libs//DeMixT.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgcc_s.1.dylib" "DeMixT.buildbin-libdir/DeMixT/libs//DeMixT.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "DeMixT.buildbin-libdir/DeMixT/libs//DeMixT.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.5.2.dylib" "DeMixT.buildbin-libdir/DeMixT/libs//DeMixT.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "DeMixT.buildbin-libdir/DeMixT/libs//DeMixT.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "DeMixT.buildbin-libdir/DeMixT/libs//DeMixT.so"