Julius Muller
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/TransView |
| Branch: RELEASE_3_7 |
| Last Commit: 3f81a94 |
| Last Changed Date: 2018-04-30 10:35:27 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:36:38 -0400 (Wed, 17 Oct 2018).
| Package 1500/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| TransView 1.24.0 Julius Muller
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: TransView |
| Version: 1.24.0 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/TransView_1.24.0.tar.gz && rm -rf TransView.buildbin-libdir && mkdir TransView.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TransView.buildbin-libdir TransView_1.24.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL TransView_1.24.0.zip && rm TransView_1.24.0.tar.gz TransView_1.24.0.zip |
| StartedAt: 2018-10-16 19:34:12 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 19:37:27 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 194.0 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/TransView_1.24.0.tar.gz && rm -rf TransView.buildbin-libdir && mkdir TransView.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TransView.buildbin-libdir TransView_1.24.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL TransView_1.24.0.zip && rm TransView_1.24.0.tar.gz TransView_1.24.0.zip
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install for i386
* installing *source* package 'TransView' ...
** libs
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c R_init_TransView.c -o R_init_TransView.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c bin_density.c -o bin_density.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c construct_dc.c -o construct_dc.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c parse_sam.c -o parse_sam.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c slice_dc.c -o slice_dc.o
slice_dc.c: In function 'slice_dc':
slice_dc.c:179:5: warning: 'slicep' may be used uninitialized in this function [-Wmaybe-uninitialized]
shrink(slicep,new_vecp,rebuildc,wsize,summarizep);
^
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c visuals.c -o visuals.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o TransView.dll tmp.def R_init_TransView.o bin_density.o construct_dc.o parse_sam.o slice_dc.o visuals.o C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib/i386/libbam.a C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib/i386/libbam.a C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib/i386/libbcf.a C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib/i386/libtabix.a -lws2_32 -pthread -LC:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -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/TransView.buildbin-libdir/TransView/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'TransView'
finding HTML links ... done
DensityContainer-class html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpaSFhSa/R.INSTALL1d6c7c153f1e/TransView/man/DensityContainer-class.Rd:137: file link 'slice1-methods' in package 'TransView' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpaSFhSa/R.INSTALL1d6c7c153f1e/TransView/man/DensityContainer-class.Rd:138: file link 'sliceN-methods' in package 'TransView' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpaSFhSa/R.INSTALL1d6c7c153f1e/TransView/man/DensityContainer-class.Rd:140: file link 'rmTV-methods' in package 'TransView' does not exist and so has been treated as a topic
TVResults-class html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpaSFhSa/R.INSTALL1d6c7c153f1e/TransView/man/TVResults-class.Rd:57: file link 'plotTVData-methods' in package 'TransView' does not exist and so has been treated as a topic
TransView-package html
annotatePeaks html
finding level-2 HTML links ... done
gtf2gr html
histogram-methods html
macs2gr html
meltPeak html
parseReads html
peak2tss html
plotTV html
plotTVData html
rmTV html
slice1 html
slice1T html
tvStats-methods html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'TransView' ...
** libs
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c R_init_TransView.c -o R_init_TransView.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c bin_density.c -o bin_density.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c construct_dc.c -o construct_dc.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c parse_sam.c -o parse_sam.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c slice_dc.c -o slice_dc.o
slice_dc.c: In function 'slice_dc':
slice_dc.c:179:5: warning: 'slicep' may be used uninitialized in this function [-Wmaybe-uninitialized]
shrink(slicep,new_vecp,rebuildc,wsize,summarizep);
^
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/include" -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c visuals.c -o visuals.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o TransView.dll tmp.def R_init_TransView.o bin_density.o construct_dc.o parse_sam.o slice_dc.o visuals.o C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib/x64/libbam.a C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib/x64/libbam.a C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib/x64/libbcf.a C:/Users/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib/x64/libtabix.a -lws2_32 -pthread -LC:/Users/biocbuild/bbs-3.7-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -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/TransView.buildbin-libdir/TransView/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TransView' as TransView_1.24.0.zip
* DONE (TransView)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'TransView' successfully unpacked and MD5 sums checked
In R CMD INSTALL