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Package 80/234 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
GeneR 2.8.0 Y. d'Aubenton-Carafa Last Changed Date: 2007-10-02 17:41:09 -0700 Last Changed Rev: 27709 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
wellington | Linux (SUSE 9.2) | i686 | OK | OK | ||
liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | [ OK ] | OK | |
pitt | Mac OS X (10.4.10) | i386 | OK | OK | OK |
Package: GeneR |
Version: 2.8.0 |
Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check GeneR_2.8.0.tar.gz |
RetCode: 0 |
Time: 65.0 seconds |
Status: OK |
CheckDir: GeneR.Rcheck |
Warnings: 0 |
* checking for working latex ... OK * using log directory 'E:/biocbld/bbs-2.1-bioc/meat/GeneR.Rcheck' * using R version 2.6.0 (2007-10-03) * checking for file 'GeneR/DESCRIPTION' ... OK * this is package 'GeneR' version '2.8.0' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'GeneR' 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 whether the name space 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 and.segSet: possible error in as.segSet(deb, fin): unused argument(s) (fin) relist: no visible global function definition for 'error' setParam: no visible global function definition for 'seqSize' * 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 line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking for portable use of $BLAS_LIBS ... OK * creating GeneR-Ex.R ... OK * checking examples ... OK * checking package vignettes in 'inst/doc' ... OK * creating GeneR-manual.tex ... OK * checking GeneR-manual.tex ... OK
GeneR.Rcheck/00install.out:
installing R.css in E:/biocbld/bbs-2.1-bioc/meat/GeneR.Rcheck ---------- Making package GeneR ------------ adding build stamp to DESCRIPTION installing NAMESPACE file and metadata making DLL ... making strcasestr.d from strcasestr.c making GeneR_glob.d from GeneR_glob.cc making GeneR_seq.d from GeneR_seq.cc making complementaire.d from complementaire.cc making compoSeq.d from compoSeq.cc making dnaRna.d from dnaRna.cc making libIndex.d from libIndex.cc making libStrings.d from libStrings.cc making makeIndex.d from makeIndex.cc making masked.d from masked.cc making misc.d from misc.cc making readEmblDescript.d from readEmblDescript.cc making readIndex.d from readIndex.cc making readLocation.d from readLocation.cc making readSeqEmbl.d from readSeqEmbl.cc making readSeqFasta.d from readSeqFasta.cc making readSeqGbk.d from readSeqGbk.cc making seqManip.d from seqManip.cc making translate.d from translate.cc making upperSeq.d from upperSeq.cc making vecteurs.d from vecteurs.cc making writeFasta.d from writeFasta.cc gcc-sjlj -std=gnu99 -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O3 -c strcasestr.c -o strcasestr.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c GeneR_glob.cc -o GeneR_glob.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c GeneR_seq.cc -o GeneR_seq.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c complementaire.cc -o complementaire.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c compoSeq.cc -o compoSeq.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c dnaRna.cc -o dnaRna.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c libIndex.cc -o libIndex.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c libStrings.cc -o libStrings.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c makeIndex.cc -o makeIndex.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c masked.cc -o masked.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c misc.cc -o misc.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c readEmblDescript.cc -o readEmblDescript.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c readIndex.cc -o readIndex.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c readLocation.cc -o readLocation.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c readSeqEmbl.cc -o readSeqEmbl.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c readSeqFasta.cc -o readSeqFasta.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c readSeqGbk.cc -o readSeqGbk.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c seqManip.cc -o seqManip.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c translate.cc -o translate.o translate.cc:35: warning: deprecated conversion from string constant to 'char*' translate.cc:35: warning: deprecated conversion from string constant to 'char*' translate.cc:35: warning: deprecated conversion from string constant to 'char*' translate.cc:35: warning: deprecated conversion from string constant to 'char*' translate.cc:35: warning: deprecated conversion from string constant to 'char*' g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c upperSeq.cc -o upperSeq.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c vecteurs.cc -o vecteurs.o g++-sjlj -Ie:/biocbld/bbs-2.1-bioc/R/include -Wall -O2 -c writeFasta.cc -o writeFasta.o windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.1-bioc/R/include -i GeneR_res.rc -o GeneR_res.o g++-sjlj -shared -s -o GeneR.dll GeneR.def strcasestr.o GeneR_glob.o GeneR_seq.o complementaire.o compoSeq.o dnaRna.o libIndex.o libStrings.o makeIndex.o masked.o misc.o readEmblDescript.o readIndex.o readLocation.o readSeqEmbl.o readSeqFasta.o readSeqGbk.o seqManip.o translate.o upperSeq.o vecteurs.o writeFasta.o GeneR_res.o -Le:/biocbld/bbs-2.1-bioc/R/bin -lR ... DLL made installing DLL installing R files installing demos installing inst files installing man source files installing indices installing help >>> Building/Updating help pages for package 'GeneR' Formats: text html latex example chm 01GeneR text html latex example chm 02globalSeg text html latex example chm 02globals text html latex example chm Allorf text html latex example chm AtoR text html latex example chm Match text html latex example chm Xor.globalSeg text html latex example chm Xor.segSet text html latex example chm and.globalSeg text html latex example chm and.segSet text html latex example chm appendSeq text html latex example chm as.globalSeg text html latex chm as.segSet text html latex chm assemble text html latex example chm bankDensityProfile text html latex example chm bankSummary text html latex example chm compos.seq text html latex example chm concat text html latex example chm deleteCR text html latex example chm densityProfile text html latex example chm dna.rna text html latex example chm exact.word text html latex example chm fasta.descript text html latex example chm free.seq text html latex example chm getAccn text html latex chm getParam text html latex chm getseq text html latex example chm indexfasta text html latex chm insert text html latex example chm lower text html latex example chm makeIndex text html latex example chm mask text html latex example chm not.globalSeg text html latex example chm not.segSet text html latex example chm or.globalSeg text html latex example chm or.segSet text html latex example chm placestring text html latex example chm plot.globalSeg text html latex example chm posMaskedSeq text html latex example chm randomSeq text html latex example chm read.gbk.location text html latex example chm readEmblDescript text html latex example chm readseq text html latex example chm relist text html latex example chm revcomp text html latex example chm seqSkew text html latex example chm sequrl text html latex example chm setAccn text html latex chm setParam text html latex chm size.globalSeg text html latex example chm sizeseq text html latex example chm sizeseqfasta text html latex example chm sliceSegment text html latex example chm translation text html latex example chm write.fasta text html latex example chm writeEMBL text html latex example chm Microsoft HTML Help Compiler 4.74.8702 Compiling e:\biocbld\bbs-2.1-bioc\meat\GeneR.Rcheck\00_pkg_src\GeneR\chm\GeneR.chm Compile time: 0 minutes, 1 second 57 Topics 317 Local links 0 Internet links 1 Graphic Created e:\biocbld\bbs-2.1-bioc\meat\GeneR.Rcheck\00_pkg_src\GeneR\chm\GeneR.chm, 77,088 bytes Compression decreased file by 112,415 bytes. preparing package GeneR for lazy loading adding MD5 sums * DONE (GeneR)