| Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:31:57 -0400 (Thu, 06 May 2021).
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To the developers/maintainers of the LINC package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 957/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Manuel Goepferich
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | ERROR | |||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | ERROR | OK | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | ERROR | OK | |||||||||
| Package: LINC |
| Version: 1.18.0 |
| Command: C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/LINC_1.18.0.tar.gz && rm -rf LINC.buildbin-libdir && mkdir LINC.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=LINC.buildbin-libdir LINC_1.18.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL LINC_1.18.0.zip && rm LINC_1.18.0.tar.gz LINC_1.18.0.zip |
| StartedAt: 2021-05-05 19:06:01 -0400 (Wed, 05 May 2021) |
| EndedAt: 2021-05-05 19:07:38 -0400 (Wed, 05 May 2021) |
| EllapsedTime: 97.6 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/LINC_1.18.0.tar.gz && rm -rf LINC.buildbin-libdir && mkdir LINC.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=LINC.buildbin-libdir LINC_1.18.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL LINC_1.18.0.zip && rm LINC_1.18.0.tar.gz LINC_1.18.0.zip
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install for i386
* installing *source* package 'LINC' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Cppspear.cpp -o Cppspear.o
Cppspear.cpp: In function 'Rcpp::NumericMatrix Cppspear(Rcpp::NumericMatrix, Rcpp::NumericMatrix)':
Cppspear.cpp:78:14: warning: unused variable 'qspear' [-Wunused-variable]
double qspear;double nfraction;
^~~~~~
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c LINC_init.c -o LINC_init.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c docdd.cpp -o docdd.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c doesd.cpp -o doesd.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o LINC.dll tmp.def Cppspear.o LINC_init.o RcppExports.o docdd.o doesd.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/LINC.buildbin-libdir/00LOCK-LINC/00new/LINC/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'history' in package 'LINC'
** help
*** installing help indices
converting help for package 'LINC'
finding HTML links ... done
Arith-methods html
BRAIN_EXPR html
LINCbio-class html
LINCcluster-class html
LINCfeature-class html
LINCmatrix-class html
LINCsingle-class html
assignment-methods html
changeOrgDb html
clusterlinc-methods html
correlation-methods html
express-methods html
feature html
getbio-methods html
getcoexpr html
getlinc-methods html
history-methods html
justlinc-methods html
linCenvir-methods html
linc-methods html
linctable-methods html
plotlinc-methods html
querycluster html
results-methods html
singlelinc-methods html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: Package 'LINC' is deprecated and will be removed from Bioconductor
version 3.13
** testing if installed package can be loaded from final location
Warning: Package 'LINC' is deprecated and will be removed from Bioconductor
version 3.13
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'LINC' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Cppspear.cpp -o Cppspear.o
Cppspear.cpp: In function 'Rcpp::NumericMatrix Cppspear(Rcpp::NumericMatrix, Rcpp::NumericMatrix)':
Cppspear.cpp:78:14: warning: unused variable 'qspear' [-Wunused-variable]
double qspear;double nfraction;
^~~~~~
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c LINC_init.c -o LINC_init.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c docdd.cpp -o docdd.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c doesd.cpp -o doesd.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o LINC.dll tmp.def Cppspear.o LINC_init.o RcppExports.o docdd.o doesd.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/LINC.buildbin-libdir/LINC/libs/x64
** testing if installed package can be loaded
Warning: Package 'LINC' is deprecated and will be removed from Bioconductor
version 3.13
* MD5 sums
packaged installation of 'LINC' as LINC_1.18.0.zip
* DONE (LINC)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'LINC' successfully unpacked and MD5 sums checked