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IMPORTANT NOTE: R was configured with --enable-strict-barrier on lamb1 |
Package 44/247 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
CALIB1.3.1Hui ZhaoLast Changed Date: 2007-06-10 10:22:32 -0700 Last Changed Rev: 25301 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | WARNINGS | |
wellington | Linux (SUSE 9.2) | i686 | OK | WARNINGS | ||
liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | [ WARNINGS ] | OK | |
pitt | Mac OS X (10.4.10) | i386 | OK | WARNINGS | OK |
Package: CALIB |
Version: 1.3.1 |
Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check CALIB_1.3.1.tar.gz |
RetCode: 0 |
Time: 115.6 seconds |
Status: WARNINGS |
CheckDir: CALIB.Rcheck |
Warnings: 2 |
* checking for working latex ... OK * using log directory 'E:/biocbld/bbs-2.1-bioc/meat/CALIB.Rcheck' * using R version 2.6.0 Under development (unstable) (2007-08-06 r42439) * checking for file 'CALIB/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'CALIB' version '1.3.1' * 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 ... WARNING Functions/methods with usage in documentation object 'subset' but not in code: [ * checking Rd \usage sections ... WARNING Objects in \usage without \alias in documentation object 'subset': [ Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See the chapter 'Writing R documentation files' in manual 'Writing R Extensions'. * 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 ... OK WARNING: There were 2 warnings, see E:/biocbld/bbs-2.1-bioc/meat/CALIB.Rcheck/00check.log for details
CALIB.Rcheck/00install.out:
installing R.css in E:/biocbld/bbs-2.1-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-2.1-bioc/R/include -Wall -O2 -c Design.cpp -o Design.o g++ -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c Estimation.cpp -o Estimation.o c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In copy constructor `std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = std::string, _Alloc = std::allocator<std::string>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In copy constructor `Spike::Spike(const Spike&)': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h: In member function `std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = std::string, _Alloc = std::allocator<std::string>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h:715: warning: '__result' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h: In member function `std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = ParameterofOneArray, _Alloc = std::allocator<ParameterofOneArray>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h:715: warning: '__result' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h: In member function `std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = Design, _Alloc = std::allocator<Design>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h:715: warning: '__result' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h: In member function `std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = RawDataofOneArray, _Alloc = std::allocator<RawDataofOneArray>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h:715: warning: '__result' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h: In member function `std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = NDataofOneGene, _Alloc = std::allocator<NDataofOneGene>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h:715: warning: '__result' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In function `SEXPREC* estimation(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In function `SEXPREC* normalization(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function g++ -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c NormalizedData.cpp -o NormalizedData.o c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In copy constructor `std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = std::string, _Alloc = std::allocator<std::string>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In member function `std::vector<std::string, std::allocator<std::string> > NormalizedData::getCloneID()': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In member function `std::vector<NDataofOneGene, std::allocator<NDataofOneGene> > NormalizedData::getData()': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In copy constructor `std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ParameterofOneArray, _Alloc = std::allocator<ParameterofOneArray>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h: In member function `std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = std::string, _Alloc = std::allocator<std::string>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h:715: warning: '__result' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h: In member function `std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = RawDataofOneArray, _Alloc = std::allocator<RawDataofOneArray>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h:715: warning: '__result' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function g++ -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c ParameterofOneArray.cpp -o ParameterofOneArray.o g++ -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c RawDataofOneArray.cpp -o RawDataofOneArray.o c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In copy constructor `std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = std::string, _Alloc = std::allocator<std::string>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In member function `std::vector<std::string, std::allocator<std::string> > RawDataofOneArray::getCloneID()': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h: In member function `std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = std::string, _Alloc = std::allocator<std::string>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h:715: warning: '__result' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function g++ -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c SpikeofOneArray.cpp -o SpikeofOneArray.o c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In member function `std::vector<std::string, std::allocator<std::string> > SpikeofOneArray::getType(Spike)': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In member function `std::vector<std::string, std::allocator<std::string> > SpikeofOneArray::getType()': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In member function `std::vector<std::string, std::allocator<std::string> > SpikeofOneArray::getSpotID(Spike)': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h: In member function `std::vector<std::string, std::allocator<std::string> > SpikeofOneArray::getSpotID()': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h: In member function `std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = std::string, _Alloc = std::allocator<std::string>]': c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_vector.h:715: warning: '__result' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function c:/usr/MinGW/bin/../lib/gcc/mingw32/3.4.5/../../../../include/c++/3.4.5/bits/stl_uninitialized.h:82: warning: '__cur' might be used uninitialized in this function windres -I e:/biocbld/bbs-2.1-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-2.1-bioc/R/bin -lR ... DLL made installing DLL installing R files installing inst files installing data files 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 subset text html latex example chm Microsoft HTML Help Compiler 4.74.8702 Compiling e:\biocbld\bbs-2.1-bioc\meat\CALIB.Rcheck\00_pkg_src\CALIB\chm\CALIB.chm Compile time: 0 minutes, 1 second 25 Topics 124 Local links 0 Internet links 1 Graphic Created e:\biocbld\bbs-2.1-bioc\meat\CALIB.Rcheck\00_pkg_src\CALIB\chm\CALIB.chm, 54,802 bytes Compression decreased file by 67,181 bytes. preparing package CALIB for lazy loading Loading required package: limma adding MD5 sums * DONE (CALIB)