| Back to Multiple platform build/check report for BioC 3.8 |
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This page was generated on 2019-04-13 11:29:54 -0400 (Sat, 13 Apr 2019).
| Package 1613/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| universalmotif 1.0.22 Benjamin Jean-Marie Tremblay
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | NA | |||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK |  | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: universalmotif |
| Version: 1.0.22 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/universalmotif_1.0.22.tar.gz && rm -rf universalmotif.buildbin-libdir && mkdir universalmotif.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=universalmotif.buildbin-libdir universalmotif_1.0.22.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL universalmotif_1.0.22.zip && rm universalmotif_1.0.22.tar.gz universalmotif_1.0.22.zip |
| StartedAt: 2019-04-12 19:12:58 -0400 (Fri, 12 Apr 2019) |
| EndedAt: 2019-04-12 19:15:51 -0400 (Fri, 12 Apr 2019) |
| EllapsedTime: 172.6 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/universalmotif_1.0.22.tar.gz && rm -rf universalmotif.buildbin-libdir && mkdir universalmotif.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=universalmotif.buildbin-libdir universalmotif_1.0.22.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL universalmotif_1.0.22.zip && rm universalmotif_1.0.22.tar.gz universalmotif_1.0.22.zip
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install for i386
* installing *source* package 'universalmotif' ...
** libs
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-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++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c add_multifreq_helper.cpp -o add_multifreq_helper.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c motif_pvalue_helper.cpp -o motif_pvalue_helper.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c motif_simil_helper.cpp -o motif_simil_helper.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c scan_sequences_helper.cpp -o scan_sequences_helper.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c trim_motifs_helper.cpp -o trim_motifs_helper.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c universalmotif_helper.cpp -o universalmotif_helper.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c utils.cpp -o utils.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o universalmotif.dll tmp.def RcppExports.o add_multifreq_helper.o motif_pvalue_helper.o motif_simil_helper.o scan_sequences_helper.o trim_motifs_helper.o universalmotif_helper.o utils.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
if test -e "/usr/bin/strip" & test -e "/bin/uname" & [[ `uname` == "Linux" ]] ; then /usr/bin/strip --strip-debug universalmotif.dll; fi
[[: not found
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/universalmotif.buildbin-libdir/universalmotif/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
in method for 'convert_motifs' with signature 'motifs="MotifList"': no definition for class "MotifList"
in method for 'convert_motifs' with signature 'motifs="TFFMFirst"': no definition for class "TFFMFirst"
in method for 'convert_motifs' with signature 'motifs="PFMatrix"': no definition for class "PFMatrix"
in method for 'convert_motifs' with signature 'motifs="PWMatrix"': no definition for class "PWMatrix"
in method for 'convert_motifs' with signature 'motifs="ICMatrix"': no definition for class "ICMatrix"
in method for 'convert_motifs' with signature 'motifs="XMatrixList"': no definition for class "XMatrixList"
in method for 'convert_motifs' with signature 'motifs="pwm"': no definition for class "pwm"
in method for 'convert_motifs' with signature 'motifs="pcm"': no definition for class "pcm"
in method for 'convert_motifs' with signature 'motifs="pfm"': no definition for class "pfm"
in method for 'convert_motifs' with signature 'motifs="PWM"': no definition for class "PWM"
in method for 'convert_motifs' with signature 'motifs="Motif"': no definition for class "Motif"
** help
Loading required namespace: universalmotif
*** installing help indices
converting help for package 'universalmotif'
finding HTML links ... done
ArabidopsisMotif html
ArabidopsisPromoters html
finding level-2 HTML links ... done
JASPAR2018_CORE_DBSCORES html
JASPAR2018_CORE_DBSCORES_NORM html
add_multifreq html
compare_motifs html
convert_motifs html
convert_type html
create_motif html
create_sequences html
enrich_motifs html
examplemotif html
examplemotif2 html
filter_motifs html
merge_motifs html
motif_pvalue html
motif_rc html
motif_tree html
read_cisbp html
read_homer html
read_jaspar html
read_matrix html
read_meme html
read_motifs html
read_transfac html
read_uniprobe html
reexports html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/Rtmpueihoe/R.INSTALL1a943f6c83/universalmotif/man/reexports.Rd:25: file link 'rownames' in package 'BiocGenerics' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/Rtmpueihoe/R.INSTALL1a943f6c83/universalmotif/man/reexports.Rd:25: file link 'colnames' in package 'BiocGenerics' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/Rtmpueihoe/R.INSTALL1a943f6c83/universalmotif/man/reexports.Rd:25: file link 'ncol' in package 'BiocGenerics' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/Rtmpueihoe/R.INSTALL1a943f6c83/universalmotif/man/reexports.Rd:25: file link 'rowSums' in package 'BiocGenerics' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/Rtmpueihoe/R.INSTALL1a943f6c83/universalmotif/man/reexports.Rd:25: file link 'colSums' in package 'BiocGenerics' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/Rtmpueihoe/R.INSTALL1a943f6c83/universalmotif/man/reexports.Rd:25: file link 'colMeans' in package 'BiocGenerics' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/Rtmpueihoe/R.INSTALL1a943f6c83/universalmotif/man/reexports.Rd:25: file link 'rowMeans' in package 'BiocGenerics' does not exist and so has been treated as a topic
run_meme html
sample_sites html
scan_sequences html
shuffle_motifs html
shuffle_sequences html
switch_alph html
trim_motifs html
universalmotif-class html
universalmotif-pkg html
utilities html
view_motifs html
write_homer html
write_jaspar html
write_matrix html
write_meme html
write_motifs html
write_transfac html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'universalmotif' ...
** libs
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-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++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c add_multifreq_helper.cpp -o add_multifreq_helper.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c motif_pvalue_helper.cpp -o motif_pvalue_helper.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c motif_simil_helper.cpp -o motif_simil_helper.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c scan_sequences_helper.cpp -o scan_sequences_helper.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c trim_motifs_helper.cpp -o trim_motifs_helper.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c universalmotif_helper.cpp -o universalmotif_helper.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c utils.cpp -o utils.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o universalmotif.dll tmp.def RcppExports.o add_multifreq_helper.o motif_pvalue_helper.o motif_simil_helper.o scan_sequences_helper.o trim_motifs_helper.o universalmotif_helper.o utils.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
if test -e "/usr/bin/strip" & test -e "/bin/uname" & [[ `uname` == "Linux" ]] ; then /usr/bin/strip --strip-debug universalmotif.dll; fi
[[: not found
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/universalmotif.buildbin-libdir/universalmotif/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'universalmotif' as universalmotif_1.0.22.zip
* DONE (universalmotif)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'universalmotif' successfully unpacked and MD5 sums checked
In R CMD INSTALL