M.Jiang
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/flowCore |
| Branch: RELEASE_3_7 |
| Last Commit: d99c7f6 |
| Last Changed Date: 2018-09-11 18:20:06 -0400 (Tue, 11 Sep 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:33:02 -0400 (Wed, 17 Oct 2018).
| Package 502/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| flowCore 1.46.2 M.Jiang
| 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 | WARNINGS | OK | |
| Package: flowCore |
| Version: 1.46.2 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/flowCore_1.46.2.tar.gz && rm -rf flowCore.buildbin-libdir && mkdir flowCore.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=flowCore.buildbin-libdir flowCore_1.46.2.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL flowCore_1.46.2.zip && rm flowCore_1.46.2.tar.gz flowCore_1.46.2.zip |
| StartedAt: 2018-10-16 18:52:23 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 18:59:05 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 402.5 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/flowCore_1.46.2.tar.gz && rm -rf flowCore.buildbin-libdir && mkdir flowCore.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=flowCore.buildbin-libdir flowCore_1.46.2.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL flowCore_1.46.2.zip && rm flowCore_1.46.2.tar.gz flowCore_1.46.2.zip
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install for i386
* installing *source* package 'flowCore' ...
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c FastLogicle.cpp -o FastLogicle.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c Hyperlog.cpp -o Hyperlog.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c Logicle.cpp -o Logicle.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/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˜1.7-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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c biexponential.cpp -o biexponential.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c convertRawBytes.cpp -o convertRawBytes.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c fcsTextParse.cpp -o fcsTextParse.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c hyperlogTransform.cpp -o hyperlogTransform.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c inPolygon.cpp -o inPolygon.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c inPolytope.cpp -o inPolytope.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c logicleTransform.cpp -o logicleTransform.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c pairVectorRcppWrap.cpp -o pairVectorRcppWrap.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c sortBytes.cpp -o sortBytes.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c uint2double.cpp -o uint2double.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c zeroin.cpp -o zeroin.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o flowCore.dll tmp.def FastLogicle.o Hyperlog.o Logicle.o RcppExports.o biexponential.o convertRawBytes.o fcsTextParse.o hyperlogTransform.o inPolygon.o inPolytope.o logicleTransform.o pairVectorRcppWrap.o sortBytes.o uint2double.o zeroin.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lR
if [ `uname -s` = 'Darwin' ]; then install_name_tool -change /usr/local/clang4/lib/libc++.1.dylib /usr/lib/libc++.1.dylib flowCore.dll; fi
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/flowCore.buildbin-libdir/flowCore/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'flowCore'
finding HTML links ... done
EHtrans-class html
FCSTransTransform html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpIBfl0e/R.INSTALLea876f83bc7/flowCore/man/FCSTransTransform.Rd:42: file link 'estimateLogicle' in package 'flowCore' does not exist and so has been treated as a topic
GvHD html
Subset-methods html
actionItem-class html
arcsinhTransform html
asinht-class html
asinhtGml2-class html
biexponentialTransform html
boundaryFilter-class html
characterOrTransformation-class html
checkOffset html
coerce html
compensateActionItem-class html
compensateView-class html
compensatedParameter-class html
compensation-class html
concreteFilter-class html
dg1polynomial-class html
each_col-methods html
ellipsoidGate html
estimateMedianLogicle html
exponential-class html
expressionFilter-class html
fcReference-class html
filter-and-methods html
filter-class html
filter-in-methods html
filter-methods html
filter-on-methods html
filterDetails-methods html
filterList-class html
filterReference-class html
filterResult-class html
filterResultList-class html
filterSet-class html
filterSummary-class html
filterSummaryList-class html
filters-class html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpIBfl0e/R.INSTALLea876f83bc7/flowCore/man/filters-class.Rd:13: file link 'filterList' in package 'flowCore' does not exist and so has been treated as a topic
flowCore-package html
flowFrame-class html
flowSet-class html
fsApply html
gateActionItem-class html
gateView-class html
getChannelMarker html
getIndexSort-methods html
hyperlog-class html
hyperlogtGml2-class html
identifier-methods html
inverseLogicleTransform html
invsplitscale-class html
keyword-methods html
kmeansFilter html
linearTransform html
lintGml2-class html
lnTransform html
logTransform html
logarithm-class html
logicalFilterResult-class html
logicleTransform html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpIBfl0e/R.INSTALLea876f83bc7/flowCore/man/logicleTransform.Rd:50: file link 'estimateLogicle' in package 'flowCore' does not exist and so has been treated as a topic
logicletGml2-class html
logtGml2-class html
manyFilterResult-class html
markernames html
multipleFilterResult-class html
norm2Filter-class html
normalization-class html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpIBfl0e/R.INSTALLea876f83bc7/flowCore/man/normalization-class.Rd:82: file link 'normalize-methods' in package 'flowStats' does not exist and so has been treated as a topic
normalizeActionItem-class html
normalizeView-class html
parameterFilter-class html
parameterTransform-class html
parameters-class html
parameters-methods html
polygonGate html
polytopeGate html
quadGate html
quadratic-class html
quadraticTransform html
randomFilterResult-class html
ratio-class html
ratiotGml2-class html
read.FCS html
read.FCSheader html
read.flowSet html
rectangleGate html
sampleFilter-class html
scaleTransform html
setOperationFilter-class html
singleParameterTransform-class html
sinht-class html
spillover-flowSet html
split-methods html
splitScaleTransform html
splitscale-class html
squareroot-class html
subsetting-class html
subsettingActionItem-class html
subsettingView-class html
summarizeFilter-methods html
timeFilter-class html
transform-class html
transformActionItem-class html
transformFilter-class html
transformList-class html
transformMap-class html
transformReference-class html
transformView-class html
transformation-class html
truncateTransform html
unitytransform-class html
validFilters html
view-class html
workFlow-class html
write.FCS html
write.flowSet html
** building package indices
** installing vignettes
'HowTo-flowCore.Rnw'
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'flowCore' ...
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c FastLogicle.cpp -o FastLogicle.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c Hyperlog.cpp -o Hyperlog.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c Logicle.cpp -o Logicle.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/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˜1.7-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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c biexponential.cpp -o biexponential.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c convertRawBytes.cpp -o convertRawBytes.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c fcsTextParse.cpp -o fcsTextParse.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c hyperlogTransform.cpp -o hyperlogTransform.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c inPolygon.cpp -o inPolygon.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c inPolytope.cpp -o inPolytope.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c logicleTransform.cpp -o logicleTransform.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c pairVectorRcppWrap.cpp -o pairVectorRcppWrap.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c sortBytes.cpp -o sortBytes.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c uint2double.cpp -o uint2double.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -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/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c zeroin.cpp -o zeroin.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o flowCore.dll tmp.def FastLogicle.o Hyperlog.o Logicle.o RcppExports.o biexponential.o convertRawBytes.o fcsTextParse.o hyperlogTransform.o inPolygon.o inPolytope.o logicleTransform.o pairVectorRcppWrap.o sortBytes.o uint2double.o zeroin.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lR
if [ `uname -s` = 'Darwin' ]; then install_name_tool -change /usr/local/clang4/lib/libc++.1.dylib /usr/lib/libc++.1.dylib flowCore.dll; fi
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/flowCore.buildbin-libdir/flowCore/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowCore' as flowCore_1.46.2.zip
* DONE (flowCore)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'flowCore' successfully unpacked and MD5 sums checked
In R CMD INSTALL