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This page was generated on 2022-08-05 14:19:54 -0400 (Fri, 05 Aug 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4361
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4179
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

BUILD BIN results for DeMixT on merida1


To the developers/maintainers of the DeMixT package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DeMixT.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? 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 504/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DeMixT 1.12.0  (landing page)
Shuai Guo
Snapshot Date: 2022-08-04 13:55:18 -0400 (Thu, 04 Aug 2022)
git_url: https://git.bioconductor.org/packages/DeMixT
git_branch: RELEASE_3_15
git_last_commit: f7bf7d2
git_last_commit_date: 2022-04-26 11:54:08 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: DeMixT
Version: 1.12.0
Command: rm -rf DeMixT.buildbin-libdir && mkdir DeMixT.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DeMixT_1.12.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R DeMixT.buildbin-libdir
StartedAt: 2022-08-05 10:24:48 -0400 (Fri, 05 Aug 2022)
EndedAt: 2022-08-05 10:26:16 -0400 (Fri, 05 Aug 2022)
EllapsedTime: 87.2 seconds
RetCode: 0
Status:   OK  
PackageFile: DeMixT_1.12.0.tgz
PackageFileSize: 2.598 MiB

Command output

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###
### Running command:
###
###   rm -rf DeMixT.buildbin-libdir && mkdir DeMixT.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh DeMixT_1.12.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R DeMixT.buildbin-libdir
###
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=DeMixT.buildbin-libdir DeMixT_1.12.0.tar.gz'
>>>>>>> 

* installing *source* package ‘DeMixT’ ...
** using staged installation
** libs
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c DeMixT.c -o DeMixT.o
DeMixT.c:268:28: 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:484:21: 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++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c Profile_2D.cpp -o Profile_2D.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c init.c -o init.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c registerDynamicSymbol.c -o registerDynamicSymbol.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -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 -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.15-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/4.2/Resources/lib/libgcc_s.1.dylib" "DeMixT.buildbin-libdir/DeMixT/libs/DeMixT.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libgfortran.5.dylib" "DeMixT.buildbin-libdir/DeMixT/libs/DeMixT.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libquadmath.0.dylib" "DeMixT.buildbin-libdir/DeMixT/libs/DeMixT.so"