* checking for working latex ... OK * using log directory 'd:/Rcompile/CRANpkg/check/1.8/bqtl.Rcheck' * checking for file 'bqtl/DESCRIPTION' ... OK * checking if this is a source package ... OK ---------- Making package bqtl ------------ adding build stamp to DESCRIPTION making DLL ... making bc1wt.d from bc1wt.c making conCk.d from conCk.c making condreg.d from condreg.c making f2wt2.d from f2wt2.c making hkreg.d from hkreg.c making lapWHL.d from lapWHL.c making lapadj.d from lapadj.c making llkEm.d from llkEm.c making normLogLik.d from normLogLik.c making swapbc1.d from swapbc1.c making swapf2.d from swapf2.c making twohkbc1.d from twohkbc1.c making twohkf2.d from twohkf2.c making upbqtl.d from upbqtl.c gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c bc1wt.c -o bc1wt.o gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c conCk.c -o conCk.o gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c condreg.c -o condreg.o gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c f2wt2.c -o f2wt2.o gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c hkreg.c -o hkreg.o hkreg.c: In function `hkreg': hkreg.c:25: warning: unused variable `np' hkreg.c:26: warning: `tmp' might be used uninitialized in this function gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c lapWHL.c -o lapWHL.o gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c lapadj.c -o lapadj.o gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c llkEm.c -o llkEm.o gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c normLogLik.c -o normLogLik.o gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c swapbc1.c -o swapbc1.o gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c swapf2.c -o swapf2.o swapf2.c: In function `swapf2': swapf2.c:102: warning: implicit declaration of function `condreg' swapf2.c:67: warning: unused variable `k' swapf2.c:67: warning: unused variable `ndelete' swapf2.c:67: warning: unused variable `curloc' swapf2.c:68: warning: unused variable `margwk' gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c twohkbc1.c -o twohkbc1.o twohkbc1.c: In function `twohkbc1': twohkbc1.c:50: warning: implicit declaration of function `condreg' gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c twohkf2.c -o twohkf2.o twohkf2.c: In function `twohkf2': twohkf2.c:51: warning: implicit declaration of function `condreg' gcc -Id:/Rcompile/recent/R-1.8.1/src/include -Wall -O2 -c upbqtl.c -o upbqtl.o g77 -O2 -Wall -c hessup.f -o hessup.o ar cr bqtl.a *.o ranlib bqtl.a windres --include-dir d:/Rcompile/recent/R-1.8.1/src/include -i bqtl_res.rc -o bqtl_res.o gcc --shared -s -o bqtl.dll bqtl.def bqtl.a bqtl_res.o -Ld:/Rcompile/recent/R-1.8.1/src/gnuwin32 -lRblas -lg2c -lR ... DLL made installing DLL installing R files installing data files installing man source files installing indices There were 32 warnings (use warnings() to see them) not zipping data installing help >>> Building/Updating help pages for package 'bqtl' Formats: text html latex example a.starting.point.for.bqtl text html latex adjust.linear.bayes text html latex bqtl-internal text html latex bqtl text html latex example coef.bqtl text html latex configs text html latex covar text html latex formula.bqtl text html latex lapadj text html latex linear.bayes text html latex example little.ana.bc text html latex little.ana.f2 text html latex little.bc.markers text html latex little.bc.pheno text html latex little.dx text html latex little.f2.markers text html latex little.f2.pheno text html latex little.map.frame text html latex little.mf.5 text html latex locus text html latex loglik text html latex make.analysis.obj text html latex example make.loc.right text html latex example make.location.prior text html latex make.map.frame text html latex example make.marker.numeric text html latex make.regressor.matrix text html latex make.state.matrix text html latex make.varcov text html latex map.index text html latex example map.location text html latex example map.names text html latex example marker.fill text html latex example marker.levels text html latex example plot.map.frame text html latex example predict.bqtl text html latex example predict.linear.bayes text html latex residuals.bqtl text html latex example summary.adj text html latex summary.bqtl text html latex example summary.map.frame text html latex summary.swap text html latex swap text html latex example swapbc1 text html latex swapf2 text html latex twohk text html latex example twohkbc1 text html latex update.bqtl text html latex example varcov text html latex >>> Building/Updating help pages for package 'bqtl' Formats: chm a.starting.point.for.bqtl chm adjust.linear.bayes chm bqtl-internal chm bqtl chm coef.bqtl chm configs chm covar chm formula.bqtl chm lapadj chm linear.bayes chm little.ana.bc chm little.ana.f2 chm little.bc.markers chm little.bc.pheno chm little.dx chm little.f2.markers chm little.f2.pheno chm little.map.frame chm little.mf.5 chm locus chm loglik chm make.analysis.obj chm make.loc.right chm make.location.prior chm make.map.frame chm make.marker.numeric chm make.regressor.matrix chm make.state.matrix chm make.varcov chm map.index chm map.location chm map.names chm marker.fill chm marker.levels chm plot.map.frame chm predict.bqtl chm predict.linear.bayes chm residuals.bqtl chm summary.adj chm summary.bqtl chm summary.map.frame chm summary.swap chm swap chm swapbc1 chm swapf2 chm twohk chm twohkbc1 chm update.bqtl chm varcov chm Microsoft HTML Help Compiler 4.74.8702 Compiling d:\Rcompile\CRANpkg\check\1.8\bqtl\chm\bqtl.chm Compile time: 0 minutes, 2 seconds 50 Topics 232 Local links 1 Internet link 1 Graphic Created d:\Rcompile\CRANpkg\check\1.8\bqtl\chm\bqtl.chm, 91,615 bytes Compression decreased file by 103,665 bytes. adding MD5 sums installing R.css in d:/Rcompile/CRANpkg/check/1.8/bqtl.Rcheck * checking package directory ... OK * checking for portable file names ... OK * checking DESCRIPTION meta-information ... OK * checking package dependencies ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for syntax errors ... OK * checking R files for library.dynam ... OK * checking S3 generic/method consistency ... OK * checking for replacement functions with final arg not named 'value' ... OK * checking Rd files ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking for CRLF line endings in C sources/headers ... OK * creating bqtl-Ex.R ... OK * checking examples ... OK * creating bqtl-manual.tex ... OK * checking bqtl-manual.tex ... OK