| Back to "Blame Jeroen" build/check report for BioC 3.11 |
This page was generated on 2020-04-14 03:20:16 -0400 (Tue, 14 Apr 2020).
| These builds are using Rtools40 and R-testing by Jeroen Ooms (available at https://cran.r-project.org/bin/windows/testing/rtools40.html) |
| TO THE DEVELOPERS/MAINTAINERS OF THE affy PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 2/89 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | |||||
| affy 1.65.1 Rafael A. Irizarry
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | [ OK ] |
| Package: affy |
| Version: 1.65.1 |
| Command: rm -rf affy.buildbin-libdir && mkdir affy.buildbin-libdir && C:\Users\bioctesting\bbs-3.11-bioc-testing\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=affy.buildbin-libdir affy_1.65.1.tar.gz |
| StartedAt: 2020-04-14 00:57:23 -0400 (Tue, 14 Apr 2020) |
| EndedAt: 2020-04-14 00:57:59 -0400 (Tue, 14 Apr 2020) |
| EllapsedTime: 35.7 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: affy_1.65.1.zip |
| PackageFileSize: 1.644 MiB |
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### Running command:
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### rm -rf affy.buildbin-libdir && mkdir affy.buildbin-libdir && C:\Users\bioctesting\bbs-3.11-bioc-testing\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=affy.buildbin-libdir affy_1.65.1.tar.gz
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install for i386
* installing *source* package 'affy' ...
** using staged installation
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
/mingw32/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c chipbackground.c -o chipbackground.o
/mingw32/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c getall_locations.c -o getall_locations.o
/mingw32/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c mas5calls.c -o mas5calls.o
/mingw32/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rma2.c -o rma2.o
/mingw32/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rma_common.c -o rma_common.o
/mingw32/bin/gcc -shared -s -static-libgcc -o affy.dll tmp.def chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o -LC:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/libs/i386 -lzlib1bioc -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCTE~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/bioctesting/bbs-3.11-bioc-testing/meat/affy.buildbin-libdir/00LOCK-affy/00new/affy/libs/i386
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'affy'
finding HTML links ... done
AffyBatch-class html
finding level-2 HTML links ... done
AffyRNAdeg html
MAplot html
ProbeSet-class html
ProgressBarText-class html
SpikeIn html
affy-deprecated html
affy-options html
affy.scalevalue.exprSet html
barplot.ProbeSet html
bg.adjust html
bgc html
cdfFromBioC html
cdfenv.example html
cleancdfname html
debug.affy123 html
expresso html
expressoWidget html
fit.li.wong html
generateExprSet-methods html
generateExprVal-methods html
generateExprVal.method.avgdiff html
generateExprVal.method.playerout html
hlog html
justrma html
list.celfiles html
maffy.subset html
mas5 html
mas5calls html
merge.AffyBatch html
mva.pairs html
normalize-methods html
normalize.constant html
normalize.contrast html
normalize.invariantset html
normalize.loess html
normalize.qspline html
normalize.quantiles html
normalize.quantiles.robust html
pairs.AffyBatch html
plot.ProbeSet html
plot.density html
plotLocation html
pmcorrect html
ppsetApply html
probeMatch-methods html
probeNames-methods html
read.affybatch html
read.probematrix html
rma html
setAffyOptions html
summary html
tukey.biweight html
whatcdf html
xy2indices 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 'affy' ...
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
/mingw64/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c chipbackground.c -o chipbackground.o
/mingw64/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c getall_locations.c -o getall_locations.o
/mingw64/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c mas5calls.c -o mas5calls.o
/mingw64/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rma2.c -o rma2.o
/mingw64/bin/gcc -I"C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/include" -I"C:/Users/BIOCTE~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I'C:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/preprocessCore/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rma_common.c -o rma_common.o
/mingw64/bin/gcc -shared -s -static-libgcc -o affy.dll tmp.def chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o -LC:/Users/bioctesting/bbs-3.11-bioc-testing/R/library/zlibbioc/libs/x64 -lzlib1bioc -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCTE~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/bioctesting/bbs-3.11-bioc-testing/meat/affy.buildbin-libdir/affy/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'affy' as affy_1.65.1.zip
* DONE (affy)