Alessandro Mammana
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/bamsignals |
| Branch: RELEASE_3_7 |
| Last Commit: 06b6282 |
| Last Changed Date: 2018-05-31 19:52:28 -0400 (Thu, 31 May 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:40:10 -0400 (Wed, 17 Oct 2018).
| Package 90/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| bamsignals 1.12.1 Alessandro Mammana
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: bamsignals |
| Version: 1.12.1 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/bamsignals_1.12.1.tar.gz && rm -rf bamsignals.buildbin-libdir && mkdir bamsignals.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=bamsignals.buildbin-libdir bamsignals_1.12.1.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL bamsignals_1.12.1.zip && rm bamsignals_1.12.1.tar.gz bamsignals_1.12.1.zip |
| StartedAt: 2018-10-16 19:26:18 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 19:27:13 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 55.1 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/3.7/bioc/src/contrib/bamsignals_1.12.1.tar.gz && rm -rf bamsignals.buildbin-libdir && mkdir bamsignals.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=bamsignals.buildbin-libdir bamsignals_1.12.1.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL bamsignals_1.12.1.zip && rm bamsignals_1.12.1.tar.gz bamsignals_1.12.1.zip
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install for i386
* installing *source* package 'bamsignals' ...
** libs
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c CountSignals.cpp -o CountSignals.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c bamsignals.cpp -o bamsignals.o
bamsignals.cpp: In function 'bool writeSamAsBamAndIndex(const string&, const string&)':
bamsignals.cpp:516:31: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result]
sam_hdr_write(out, header);
^
bamsignals.cpp:521:36: warning: ignoring return value of 'int bam_write1(BGZF*, const bam1_t*)', declared with attribute warn_unused_result [-Wunused-result]
bam_write1(out->fp.bgzf, b); // write the alignment to `out'
^
bamsignals.cpp:530:40: warning: ignoring return value of 'int sam_index_build(const char*, int)', declared with attribute warn_unused_result [-Wunused-result]
bam_index_build(bampath.c_str(), 0);
^
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c bamsignals_init.c -o bamsignals_init.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o bamsignals.dll tmp.def CountSignals.o RcppExports.o bamsignals.o bamsignals_init.o -LC:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/usrlib/i386 -lhts -lz -lm -lws2_32 -lpthread -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/bamsignals.buildbin-libdir/bamsignals/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'bamsignals'
finding HTML links ... done
CountSignals-class html
as.list.CountSignals html
bamsignals-methods html
bamsignals html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'bamsignals' ...
** libs
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c CountSignals.cpp -o CountSignals.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c bamsignals.cpp -o bamsignals.o
bamsignals.cpp: In function 'bool writeSamAsBamAndIndex(const string&, const string&)':
bamsignals.cpp:516:31: warning: ignoring return value of 'int sam_hdr_write(samFile*, const bam_hdr_t*)', declared with attribute warn_unused_result [-Wunused-result]
sam_hdr_write(out, header);
^
bamsignals.cpp:521:36: warning: ignoring return value of 'int bam_write1(BGZF*, const bam1_t*)', declared with attribute warn_unused_result [-Wunused-result]
bam_write1(out->fp.bgzf, b); // write the alignment to `out'
^
bamsignals.cpp:530:40: warning: ignoring return value of 'int sam_index_build(const char*, int)', declared with attribute warn_unused_result [-Wunused-result]
bam_index_build(bampath.c_str(), 0);
^
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c bamsignals_init.c -o bamsignals_init.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o bamsignals.dll tmp.def CountSignals.o RcppExports.o bamsignals.o bamsignals_init.o -LC:/Users/biocbuild/bbs-3.7-bioc/R/library/Rhtslib/usrlib/x64 -lhts -lz -lm -lws2_32 -lpthread -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/bamsignals.buildbin-libdir/bamsignals/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'bamsignals' as bamsignals_1.12.1.zip
* DONE (bamsignals)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'bamsignals' successfully unpacked and MD5 sums checked
In R CMD INSTALL