############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf iClusterPlus.buildbin-libdir && mkdir iClusterPlus.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=iClusterPlus.buildbin-libdir iClusterPlus_1.30.0.tar.gz ### ############################################################################## ############################################################################## install for i386 * installing *source* package 'iClusterPlus' ... ** using staged installation ********************************************** WARNING: this package has a configure script It probably needs manual configuration ********************************************** ** libs "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c iClusterBayes.c -o iClusterBayes.o iClusterBayes.c: In function 'mcmcBayes': iClusterBayes.c:1212:28: warning: variable 'Zdraw' set but not used [-Wunused-but-set-variable] int i,j,h,n,k,ID,Zburnin,Zdraw,ndt,nk,thin,nthin,remainder,ty0,p0,ty1,p1,ty2,p2,ty3,p3,ty4,p4,ty5,p5,betaBurnin,betaDraw,p0k,p1k,p2k,p3k,p4k,p5k; ^~~~~ iClusterBayes.c:1212:20: warning: variable 'Zburnin' set but not used [-Wunused-but-set-variable] int i,j,h,n,k,ID,Zburnin,Zdraw,ndt,nk,thin,nthin,remainder,ty0,p0,ty1,p1,ty2,p2,ty3,p3,ty4,p4,ty5,p5,betaBurnin,betaDraw,p0k,p1k,p2k,p3k,p4k,p5k; ^~~~~~~ iClusterBayes.c:1600:13: warning: 'gb4' may be used uninitialized in this function [-Wmaybe-uninitialized] gb4[ID] = b4[ID]*gamma4[j]; ~~~~~~~~^~~~~~~~~~~~~~~~~~ iClusterBayes.c:1575:13: warning: 'gb3' may be used uninitialized in this function [-Wmaybe-uninitialized] gb3[ID] = b3[ID]*gamma3[j]; ~~~~~~~~^~~~~~~~~~~~~~~~~~ iClusterBayes.c:1475:5: warning: 'gb2' may be used uninitialized in this function [-Wmaybe-uninitialized] mcmcMix6d(meanZ,lastZ,nkZbd,sdev, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty0,&p0,a0,gb0,con0,cat0,sigma0, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty1,&p1,a1,gb1,con1,cat1,sigma1, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty2,&p2,a2,gb2,con2,cat2,sigma2, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty3,&p3,a3,gb3,con3,cat3,sigma3, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty4,&p4,a4,gb4,con4,cat4,sigma4, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty5,&p5,a5,gb5,con5,cat5,sigma5,acceptZ); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iClusterBayes.c:1475:5: warning: 'gb1' may be used uninitialized in this function [-Wmaybe-uninitialized] iClusterBayes.c:1475:5: warning: 'gb0' may be used uninitialized in this function [-Wmaybe-uninitialized] iClusterBayes.c:1625:13: warning: 'gb5' may be used uninitialized in this function [-Wmaybe-uninitialized] gb5[ID] = b5[ID]*gamma5[j]; ~~~~~~~~^~~~~~~~~~~~~~~~~~ "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c iClusterPlus.c -o iClusterPlus.o "C:/rtools40/mingw32/bin/"gfortran -fno-optimize-sibling-calls -fdefault-real-8 -ffixed-form -O2 -mfpmath=sse -msse2 -mstackrealign -c newGLMnet.f90 -o newGLMnet.o C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o iClusterPlus.dll tmp.def iClusterBayes.o iClusterPlus.o newGLMnet.o -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -lgfortran -lm -lquadmath -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/iClusterPlus.buildbin-libdir/00LOCK-iClusterPlus/00new/iClusterPlus/libs/i386 ** R ** data *** moving datasets to lazyload DB ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'iClusterPlus' finding HTML links ... done CNregions html breast.chr17 html compute.pod html coord html gbm html glp html iCluster html iCluster2 html iClusterBayes html iClusterPlus html plotHMBayes html plotHeatmap html plotRI html plotiCluster html simuResult html tune.iCluster2 html tune.iClusterBayes html tune.iClusterPlus html utility html variation.hg18.v10.nov.2010 html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'iClusterPlus' ... ********************************************** WARNING: this package has a configure script It probably needs manual configuration ********************************************** ** libs "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c iClusterBayes.c -o iClusterBayes.o iClusterBayes.c: In function 'mcmcBayes': iClusterBayes.c:1212:28: warning: variable 'Zdraw' set but not used [-Wunused-but-set-variable] int i,j,h,n,k,ID,Zburnin,Zdraw,ndt,nk,thin,nthin,remainder,ty0,p0,ty1,p1,ty2,p2,ty3,p3,ty4,p4,ty5,p5,betaBurnin,betaDraw,p0k,p1k,p2k,p3k,p4k,p5k; ^~~~~ iClusterBayes.c:1212:20: warning: variable 'Zburnin' set but not used [-Wunused-but-set-variable] int i,j,h,n,k,ID,Zburnin,Zdraw,ndt,nk,thin,nthin,remainder,ty0,p0,ty1,p1,ty2,p2,ty3,p3,ty4,p4,ty5,p5,betaBurnin,betaDraw,p0k,p1k,p2k,p3k,p4k,p5k; ^~~~~~~ iClusterBayes.c:1446:13: warning: 'gb4' may be used uninitialized in this function [-Wmaybe-uninitialized] gb4[ID] = b4[ID]*gamma4[j]; ~~~~~~~~^~~~~~~~~~~~~~~~~~ iClusterBayes.c:1431:13: warning: 'gb3' may be used uninitialized in this function [-Wmaybe-uninitialized] gb3[ID] = b3[ID]*gamma3[j]; ~~~~~~~~^~~~~~~~~~~~~~~~~~ iClusterBayes.c:1475:5: warning: 'gb2' may be used uninitialized in this function [-Wmaybe-uninitialized] mcmcMix6d(meanZ,lastZ,nkZbd,sdev, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty0,&p0,a0,gb0,con0,cat0,sigma0, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty1,&p1,a1,gb1,con1,cat1,sigma1, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty2,&p2,a2,gb2,con2,cat2,sigma2, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty3,&p3,a3,gb3,con3,cat3,sigma3, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty4,&p4,a4,gb4,con4,cat4,sigma4, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ &ty5,&p5,a5,gb5,con5,cat5,sigma5,acceptZ); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ iClusterBayes.c:1475:5: warning: 'gb1' may be used uninitialized in this function [-Wmaybe-uninitialized] iClusterBayes.c:1475:5: warning: 'gb0' may be used uninitialized in this function [-Wmaybe-uninitialized] iClusterBayes.c:1461:13: warning: 'gb5' may be used uninitialized in this function [-Wmaybe-uninitialized] gb5[ID] = b5[ID]*gamma5[j]; ~~~~~~~~^~~~~~~~~~~~~~~~~~ "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c iClusterPlus.c -o iClusterPlus.o "C:/rtools40/mingw64/bin/"gfortran -fno-optimize-sibling-calls -fdefault-real-8 -ffixed-form -O2 -mfpmath=sse -msse2 -mstackrealign -c newGLMnet.f90 -o newGLMnet.o C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o iClusterPlus.dll tmp.def iClusterBayes.o iClusterPlus.o newGLMnet.o -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -lgfortran -lm -lquadmath -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/iClusterPlus.buildbin-libdir/iClusterPlus/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'iClusterPlus' as iClusterPlus_1.30.0.zip * DONE (iClusterPlus)