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Package 74/462HostnameOS / ArchBUILDCHECKBUILD BIN
CALIB 1.19.0
Hui Zhao
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/CALIB
Last Changed Rev: 54802 / Revision: 55359
Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 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 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: CALIB
Version: 1.19.0
Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings CALIB_1.19.0.tar.gz
StartedAt: 2011-05-09 12:52:07 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 12:53:29 -0700 (Mon, 09 May 2011)
EllapsedTime: 81.3 seconds
RetCode: 0
Status:  OK  
CheckDir: CALIB.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/CALIB.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-04-17 r55484)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'CALIB/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CALIB' version '1.19.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'CALIB' can be installed ... OK
* checking installed package size ... OK
* 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
* 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 ... NOTE
getColClasses: no visible global function definition for 'namesInFun'
plotSpikeCI: no visible binding for global variable 'otherindex'
read.rg: no visible global function definition for 'readBlueFuseHeader'
read.spike: no visible binding for global variable 'files'
* 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 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

CALIB.Rcheck/00install.out:

* installing *source* package 'CALIB' ...
** libs
g++  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -c Design.cpp -o Design.o
g++  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -c Estimation.cpp -o Estimation.o
Estimation.cpp: In function 'SEXPREC* estimation(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
Estimation.cpp:144:78: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144:78: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144:78: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144:78: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144:78: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144:78: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144:78: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144:78: warning: deprecated conversion from string constant to 'char*'
g++  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -c NormalizedData.cpp -o NormalizedData.o
g++  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -c ParameterofOneArray.cpp -o ParameterofOneArray.o
g++  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -c RawDataofOneArray.cpp -o RawDataofOneArray.o
g++  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -c SpikeofOneArray.cpp -o SpikeofOneArray.o
g++ -shared -s -static-libgcc -o CALIB.dll tmp.def Design.o Estimation.o NormalizedData.o ParameterofOneArray.o RawDataofOneArray.o SpikeofOneArray.o -LE:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.9-bioc/meat/CALIB.Rcheck/CALIB/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'quickstart.Rnw' 
** testing if installed package can be loaded

* DONE (CALIB)

CALIB.Rcheck/CALIB-Ex.timings:

nameusersystemelapsed
RG0.200.000.21
adjustP20.500.020.54
calibReadMe000
cbind0.020.000.02
dim000
dimnames0.010.000.02
estimateParameter17.1 0.017.1
getColClasses000
merge0.010.000.02
normalizeData1.390.011.45
normdata0.140.000.14
parameter0.050.000.05
plotNormalizedData0.120.000.13
plotSpikeCI0.150.020.15
plotSpikeHI0.090.000.10
plotSpikeRG0.500.010.51
plotSpikeSpotError0.090.000.10
read.rg000
spike0.050.000.04
subsetting000