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Package 52/294HostnameOS / ArchBUILDCHECKBUILD BIN
CALIB 1.8.0
Hui Zhao
Bioconductor Changelog
Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/CALIB
Last Changed Rev: 34811 / Revision: 38965
Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008)
wilson2 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.6) / i386  OK  OK  OK 
Package: CALIB
Version: 1.8.0
Command: E:\biocbld\bbs-2.3-bioc\R\bin\R.exe CMD check --no-vignettes CALIB_1.8.0.tar.gz
StartedAt: 2009-04-18 18:24:58 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 18:26:20 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 81.4 seconds
RetCode: 0
Status: OK
CheckDir: CALIB.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.3-bioc/meat/CALIB.Rcheck'
* using R version 2.8.1 (2008-12-22)
* using session charset: ISO8859-1
* checking for file 'CALIB/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CALIB' version '1.8.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'CALIB' can be installed ... 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 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 cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating CALIB-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating CALIB-manual.tex ... OK
* checking CALIB-manual.tex using pdflatex ... OK

CALIB.Rcheck/00install.out:

installing R.css in E:/biocbld/bbs-2.3-bioc/meat/CALIB.Rcheck


---------- Making package CALIB ------------
  adding build stamp to DESCRIPTION
  making DLL ...
making Design.d from Design.cpp
making Estimation.d from Estimation.cpp
making NormalizedData.d from NormalizedData.cpp
making ParameterofOneArray.d from ParameterofOneArray.cpp
making RawDataofOneArray.d from RawDataofOneArray.cpp
making SpikeofOneArray.d from SpikeofOneArray.cpp
g++   -Ie:/biocbld/bbs-2.3-bioc/R/include     -O2 -Wall  -c Design.cpp -o Design.o
g++   -Ie:/biocbld/bbs-2.3-bioc/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: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144: warning: deprecated conversion from string constant to 'char*'
Estimation.cpp:144: warning: deprecated conversion from string constant to 'char*'
g++   -Ie:/biocbld/bbs-2.3-bioc/R/include     -O2 -Wall  -c NormalizedData.cpp -o NormalizedData.o
g++   -Ie:/biocbld/bbs-2.3-bioc/R/include     -O2 -Wall  -c ParameterofOneArray.cpp -o ParameterofOneArray.o
g++   -Ie:/biocbld/bbs-2.3-bioc/R/include     -O2 -Wall  -c RawDataofOneArray.cpp -o RawDataofOneArray.o
g++   -Ie:/biocbld/bbs-2.3-bioc/R/include     -O2 -Wall  -c SpikeofOneArray.cpp -o SpikeofOneArray.o
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.3-bioc/R/include  -i CALIB_res.rc -o CALIB_res.o
g++   -shared -s  -o CALIB.dll CALIB.def Design.o Estimation.o NormalizedData.o ParameterofOneArray.o RawDataofOneArray.o SpikeofOneArray.o CALIB_res.o  -Le:/biocbld/bbs-2.3-bioc/R/bin    -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  installing data files
  preparing package CALIB for lazy loading
Loading required package: limma
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'CALIB'
     Formats: text html latex example chm 
  ParameterList-class               text    html    latex           chm
  RG                                text    html    latex   example chm
  RGList_CALIB-class                text    html    latex           chm
  SpikeList-class                   text    html    latex           chm
  adjustP2                          text    html    latex   example chm
  calibReadMe                       text    html    latex   example chm
  cbind                             text    html    latex   example chm
  dim                               text    html    latex   example chm
  dimnames                          text    html    latex   example chm
  estimateParameter                 text    html    latex   example chm
  getColClasses                     text    html    latex   example chm
  merge                             text    html    latex   example chm
  normalizeData                     text    html    latex   example chm
  normdata                          text    html    latex   example chm
  parameter                         text    html    latex   example chm
  plotNormalizedData                text    html    latex   example chm
  plotSpikeCI                       text    html    latex   example chm
  plotSpikeHI                       text    html    latex   example chm
  plotSpikeRG                       text    html    latex   example chm
  plotSpikeSpotError                text    html    latex   example chm
  read.rg                           text    html    latex   example chm
  read.spike                        text    html    latex           chm
  spike                             text    html    latex   example chm
  subsetting                        text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.3-bioc\meat\CALIB.Rcheck\00_pkg_src\CALIB\chm\CALIB.chm


Compile time: 0 minutes, 5 seconds
25	Topics
124	Local links
0	Internet links
1	Graphic


Created e:\biocbld\bbs-2.3-bioc\meat\CALIB.Rcheck\00_pkg_src\CALIB\chm\CALIB.chm, 54,878 bytes
Compression decreased file by 67,266 bytes.
  adding MD5 sums

* DONE (CALIB)