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Package 153/479HostnameOS / ArchBUILDCHECKBUILD BIN
flowCore 1.19.2
F. Hahne
Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowCore
Last Changed Rev: 56203 / Revision: 56603
Last Changed Date: 2011-06-15 07:43:08 -0700 (Wed, 15 Jun 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise (64-bit) / x64  OK [ OK ] OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: flowCore
Version: 1.19.2
Command: mkdir flowCore.buildbin-libdir && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowCore.buildbin-libdir flowCore_1.19.2.tar.gz >flowCore-install.out 2>&1 && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --library=flowCore.buildbin-libdir --install="check:flowCore-install.out" --force-multiarch --no-vignettes --timings flowCore_1.19.2.tar.gz && mv flowCore.buildbin-libdir/* flowCore.Rcheck/ && rmdir flowCore.buildbin-libdir
StartedAt: 2011-07-07 04:53:32 -0700 (Thu, 07 Jul 2011)
EndedAt: 2011-07-07 04:59:06 -0700 (Thu, 07 Jul 2011)
EllapsedTime: 333.6 seconds
RetCode: 0
Status:  OK  
CheckDir: flowCore.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/flowCore.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-20 r56188)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowCore/DESCRIPTION' ... OK
* this is package 'flowCore' version '1.19.2'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'flowCore' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 12.8Mb
  sub-directories of 1Mb or more:
    data      8.0Mb
    doc       1.2Mb
    extdata   1.1Mb
    libs      1.2Mb
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the name space can be loaded with stated dependencies ... OK
** checking whether the name space can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the name space can be loaded with stated dependencies ... OK
** checking whether the name space can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... NOTE
  
  Note: significantly better compression could be obtained
        by using tools::resaveRdaFiles() or R CMD build --resave-data
           old_size new_size compress
  GvHD.rda    8.0Mb    5.0Mb       xz
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

flowCore.Rcheck/00install.out:


install for i386

* installing *source* package 'flowCore' ...
** libs
g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -mtune=core2 -c FastLogicle.cpp -o FastLogicle.o
g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -mtune=core2 -c Logicle.cpp -o Logicle.o
gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c biexponential.c -o biexponential.o
gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c inPolygon.c -o inPolygon.o
gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c inPolytope.c -o inPolytope.o
gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c init.c -o init.o
g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -mtune=core2 -c logicleTransform.cpp -o logicleTransform.o
g++ -shared -s -static-libgcc -o flowCore.dll tmp.def FastLogicle.o Logicle.o biexponential.o inPolygon.o inPolytope.o init.o logicleTransform.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/flowCore.buildbin-libdir/flowCore/libs/i386
** R
** data
** inst
** preparing package for lazy loading

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

Loading required package: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'HowTo-flowCore.Rnw' 
** testing if installed package can be loaded
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)

add DLL for x64

* installing *source* package 'flowCore' ...
** libs
x86_64-w64-mingw32-g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -mtune=core2 -c FastLogicle.cpp -o FastLogicle.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -mtune=core2 -c Logicle.cpp -o Logicle.o
x86_64-w64-mingw32-gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -std=gnu99 -mtune=core2 -c biexponential.c -o biexponential.o
x86_64-w64-mingw32-gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -std=gnu99 -mtune=core2 -c inPolygon.c -o inPolygon.o
x86_64-w64-mingw32-gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -std=gnu99 -mtune=core2 -c inPolytope.c -o inPolytope.o
x86_64-w64-mingw32-gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -std=gnu99 -mtune=core2 -c init.c -o init.o
x86_64-w64-mingw32-g++  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -mtune=core2 -c logicleTransform.cpp -o logicleTransform.o
x86_64-w64-mingw32-g++ -shared -s -static-libgcc -o flowCore.dll tmp.def FastLogicle.o Logicle.o biexponential.o inPolygon.o inPolytope.o init.o logicleTransform.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/flowCore.buildbin-libdir/flowCore/libs/x64
** testing if installed package can be loaded
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)
* MD5 sums
packaged installation of 'flowCore' as flowCore_1.19.2.zip

* DONE (flowCore)

flowCore.Rcheck/flowCore-Ex.timings:

nameusersystemelapsed
EHtrans-class0.190.000.19
Subset-methods1.170.021.19
actionItem-class0.010.000.01
arcsinhTransform0.160.000.16
asinht-class0.060.000.06
biexponentialTransform8.570.158.74
boundaryFilter-class0.280.000.28
characterOrTransformation-class000
coerce0.120.000.12
compensateActionItem-class000
compensateView-class000
compensatedParameter-class0.330.000.33
compensation-class0.640.020.65
curv1Filter-class0.790.020.87
curv2Filter-class3.780.013.80
dg1polynomial-class0.070.000.07
each_col-methods0.080.000.08
ellipsoidGate0.130.000.13
exponential-class0.060.000.06
expressionFilter-class0.120.000.12
fcReference-class000
filter-methods1.280.021.31
filter-on-methods0.220.000.22
filterList-class0.020.000.02
filterResult-class000
filterResultList-class1.850.011.87
filterSet-class0.070.000.06
filterSummary-class0.50.00.5
filterSummaryList-class1.570.021.59
flowFrame-class4.790.064.85
flowSet-class4.320.004.33
fsApply0.310.000.31
gateActionItem-class000
gateView-class000
hyperlog-class1.810.001.81
identifier-methods0.050.000.05
inverseLogicleTransform0.850.000.86
invsplitscale-class0.070.000.06
keyword-methods1.060.001.06
kmeansFilter0.280.000.28
linearTransform0.080.000.08
lnTransform2.620.052.67
logTransform0.090.000.09
logarithm-class0.160.000.16
logicalFilterResult-class000
logicleTransform1.370.001.45
manyFilterResult-class000
multipleFilterResult-class000
norm2Filter-class0.350.000.38
normalizeActionItem-class000
normalizeView-class000
parameters-methods0.080.000.08
polygonGate0.120.000.12
quadGate0.340.000.34
quadratic-class0.070.000.07
quadraticTransform0.090.000.09
ratio-class0.050.010.06
read.FCS0.090.020.11
read.FCSheader0.000.010.02
read.flowSet0.230.000.23
rectangleGate0.220.020.30
sampleFilter-class0.110.000.11
scaleTransform0.100.000.09
singleParameterTransform-class000
sinht-class0.060.000.06
split-methods1.650.001.66
splitScaleTransform3.110.023.12
splitscale-class0.20.00.2
squareroot-class0.090.000.09
subsettingActionItem-class000
subsettingView-class000
timeFilter-class3.510.023.52
transform-class0.000.000.02
transformActionItem-class000
transformFilter-class0.170.000.17
transformList-class0.890.000.89
transformMap-class000
transformView-class000
truncateTransform0.090.000.09
unitytransform-class0.060.000.07
view-class000
workFlow-class000
write.FCS0.070.000.06
write.flowSet1.140.001.17