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Package 166/514HostnameOS / ArchBUILDCHECKBUILD BIN
flowCore 1.20.0
Mike Jiang
Snapshot Date: 2012-03-23 18:21:46 -0700 (Fri, 23 Mar 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/flowCore
Last Changed Rev: 61510 / Revision: 64395
Last Changed Date: 2011-12-20 15:38:31 -0800 (Tue, 20 Dec 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: flowCore
Version: 1.20.0
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings flowCore_1.20.0.tar.gz
StartedAt: 2012-03-24 00:17:26 -0700 (Sat, 24 Mar 2012)
EndedAt: 2012-03-24 00:20:14 -0700 (Sat, 24 Mar 2012)
EllapsedTime: 167.8 seconds
RetCode: 0
Status:  OK 
CheckDir: flowCore.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/flowCore.Rcheck’
* using R version 2.14.2 (2012-02-29)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowCore/DESCRIPTION’ ... OK
* this is package ‘flowCore’ version ‘1.20.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package ‘flowCore’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  8.8Mb
  sub-directories of 1Mb or more:
    data      5.0Mb
    doc       1.2Mb
    extdata   1.1Mb
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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
* 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 namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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 ... OK
* 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 compiled code ... OK
* checking examples ... 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:

* installing *source* package ‘flowCore’ ...
** libs
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c FastLogicle.cpp -o FastLogicle.o
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c Logicle.cpp -o Logicle.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c biexponential.c -o biexponential.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c inPolygon.c -o inPolygon.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c inPolytope.c -o inPolytope.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c init.c -o init.o
g++ -I/home/biocbuild/bbs-2.9-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -c logicleTransform.cpp -o logicleTransform.o
g++ -shared -L/usr/local/lib64 -o flowCore.so FastLogicle.o Logicle.o biexponential.o inPolygon.o inPolytope.o init.o logicleTransform.o -L/home/biocbuild/bbs-2.9-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.9-bioc/meat/flowCore.Rcheck/flowCore/libs
** R
** data
** inst
** preparing package for lazy loading
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)
Warning: replacing previous import ‘.__C__character’ when loading ‘methods’
Creating a new generic function for ‘filter’ in package ‘flowCore’
** 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)
Warning message:
replacing previous import ‘.__C__character’ when loading ‘methods’ 

* DONE (flowCore)

flowCore.Rcheck/flowCore-Ex.timings:

nameusersystemelapsed
EHtrans-class0.2600.0080.266
Subset-methods1.5960.0161.643
actionItem-class0.0000.0000.001
arcsinhTransform0.0880.0040.094
asinht-class0.2080.0040.210
biexponentialTransform12.137 0.24812.469
boundaryFilter-class0.3160.0120.325
characterOrTransformation-class0.0000.0000.001
coerce0.1000.0000.105
compensateActionItem-class0.0000.0000.001
compensateView-class0.0040.0000.001
compensatedParameter-class0.2880.0040.314
compensation-class0.6840.0040.690
curv1Filter-class0.5080.0000.505
curv2Filter-class2.7440.0282.778
dg1polynomial-class0.0400.0040.045
each_col-methods0.0560.0040.059
ellipsoidGate0.1120.0000.113
exponential-class0.0480.0000.048
expressionFilter-class0.1320.0000.134
fcReference-class0.0000.0000.001
filter-methods1.4920.0481.568
filter-on-methods0.2000.0000.202
filterList-class0.0120.0000.011
filterResult-class0.0040.0000.001
filterResultList-class2.1240.0602.190
filterSet-class0.0760.0000.076
filterSummary-class0.1760.0000.176
filterSummaryList-class1.8800.0441.921
flowFrame-class4.3450.0844.432
flowSet-class4.4160.0364.451
fsApply0.3080.0000.307
gateActionItem-class0.0040.0000.001
gateView-class0.0000.0000.001
hyperlog-class1.8600.0001.858
identifier-methods0.0320.0080.041
inverseLogicleTransform1.2840.0241.307
invsplitscale-class0.0520.0000.050
keyword-methods1.5680.0401.608
kmeansFilter0.2640.0040.265
linearTransform0.0640.0000.065
lnTransform4.7680.0924.915
logTransform0.2360.0040.237
logarithm-class0.0400.0040.045
logicalFilterResult-class0.0040.0000.001
logicleTransform1.2850.0281.372
manyFilterResult-class0.0000.0040.000
multipleFilterResult-class0.0000.0000.001
norm2Filter-class0.1920.0080.201
normalizeActionItem-class0.0000.0000.001
normalizeView-class0.0000.0000.001
parameters-methods0.0400.0000.043
polygonGate0.1080.0040.111
quadGate0.3040.0080.344
quadratic-class0.0440.0000.045
quadraticTransform0.0680.0000.066
ratio-class0.0440.0040.047
read.FCS0.0720.0000.075
read.FCSheader0.0080.0040.009
read.flowSet0.1880.0000.201
rectangleGate0.1560.0040.162
sampleFilter-class0.0840.0040.091
scaleTransform0.0680.0040.086
singleParameterTransform-class0.0000.0040.002
sinht-class0.0400.0000.044
split-methods2.0040.0562.101
splitScaleTransform3.8840.0763.975
splitscale-class0.0440.0000.044
squareroot-class0.0440.0000.045
subsettingActionItem-class0.0040.0000.001
subsettingView-class0.0000.0000.001
timeFilter-class2.6720.0442.772
transform-class0.0000.0000.002
transformActionItem-class000
transformFilter-class0.1480.0000.148
transformList-class1.2000.0321.233
transformMap-class0.0000.0000.001
transformView-class0.0000.0000.001
truncateTransform0.0800.0080.099
unitytransform-class0.040.000.04
view-class0.0000.0000.001
workFlow-class0.0000.0000.001
write.FCS0.0720.0000.074
write.flowSet1.4880.0481.563