Matthias Zytnicki
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/srnadiff |
| Branch: RELEASE_3_9 |
| Last Commit: 3f1343e |
| Last Changed Date: 2019-05-02 11:54:10 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:40:25 -0400 (Wed, 16 Oct 2019).
| Package 1583/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| srnadiff 1.4.0 Matthias Zytnicki
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: srnadiff |
| Version: 1.4.0 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/srnadiff_1.4.0.tar.gz && rm -rf srnadiff.buildbin-libdir && mkdir srnadiff.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=srnadiff.buildbin-libdir srnadiff_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL srnadiff_1.4.0.zip && rm srnadiff_1.4.0.tar.gz srnadiff_1.4.0.zip |
| StartedAt: 2019-10-15 20:25:49 -0400 (Tue, 15 Oct 2019) |
| EndedAt: 2019-10-15 20:28:20 -0400 (Tue, 15 Oct 2019) |
| EllapsedTime: 151.3 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/srnadiff_1.4.0.tar.gz && rm -rf srnadiff.buildbin-libdir && mkdir srnadiff.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=srnadiff.buildbin-libdir srnadiff_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL srnadiff_1.4.0.zip && rm srnadiff_1.4.0.tar.gz srnadiff_1.4.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
0 1839k 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 1839k 100 1839k 0 0 19.4M 0 --:--:-- --:--:-- --:--:-- 20.8M
install for i386
* installing *source* package 'srnadiff' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c rcpp_hmm.cpp -o rcpp_hmm.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c rcpp_naive.cpp -o rcpp_naive.o
rcpp_naive.cpp: In function 'Rcpp::DataFrame rcpp_naive(Rcpp::ListOf > >&, Rcpp::ListOf > >&, Rcpp::IntegerVector&, int, int, int)':
rcpp_naive.cpp:80:13: warning: 'start' may be used uninitialized in this function [-Wmaybe-uninitialized]
if (addElement(start, iterator.getPosition(), chromosome, starts,
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c rcpp_slice.cpp -o rcpp_slice.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c rcpp_utils.cpp -o rcpp_utils.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c srnadiff_init.c -o srnadiff_init.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o srnadiff.dll tmp.def RcppExports.o rcpp_hmm.o rcpp_naive.o rcpp_slice.o rcpp_utils.o srnadiff_init.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/srnadiff.buildbin-libdir/00LOCK-srnadiff/00new/srnadiff/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'srnadiff'
finding HTML links ... done
buildDataHmm html
computePvalues html
plotRegion html
rcpp_buildHmm html
rcpp_naive html
rcpp_normalization html
rcpp_slice html
rcpp_viterbi html
readAnnotation html
readMiRBaseMatureAnnotation html
readMiRBasePreAnnotation html
readWholeGenomeAnnotation html
regions-method html
runAll html
runAllAnnotation html
runAllHmm html
runAllNaive html
runAllSlice html
runHmm html
runSlice html
sRNADiff-class html
sRNADiffExample html
sRNADiffExp html
setEmissionProbabilities-method html
setEmissionThreshold-method html
setMergeDistance-method html
setMinDepth-method html
setMinDifferences-method html
setMinOverlap-method html
setNThreads-method html
setSizes-method html
setStrategies-method html
setTransitionProbabilities-method html
show-sRNADiff-method html
srnadiff html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'srnadiff' ...
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c rcpp_hmm.cpp -o rcpp_hmm.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c rcpp_naive.cpp -o rcpp_naive.o
rcpp_naive.cpp: In function 'Rcpp::DataFrame rcpp_naive(Rcpp::ListOf > >&, Rcpp::ListOf > >&, Rcpp::IntegerVector&, int, int, int)':
rcpp_naive.cpp:80:13: warning: 'start' may be used uninitialized in this function [-Wmaybe-uninitialized]
if (addElement(start, iterator.getPosition(), chromosome, starts,
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c rcpp_slice.cpp -o rcpp_slice.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c rcpp_utils.cpp -o rcpp_utils.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c srnadiff_init.c -o srnadiff_init.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o srnadiff.dll tmp.def RcppExports.o rcpp_hmm.o rcpp_naive.o rcpp_slice.o rcpp_utils.o srnadiff_init.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/srnadiff.buildbin-libdir/srnadiff/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'srnadiff' as srnadiff_1.4.0.zip
* DONE (srnadiff)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'srnadiff' successfully unpacked and MD5 sums checked