* Installing *source* package 'gap' ... ** libs gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c 2k.c -o 2k.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c 2ld.c -o 2ld.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c cline.c -o cline.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c gc.c -o gc.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c gcontrol.c -o gcontrol.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c gif.c -o gif.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c hap.c -o hap.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c hwe.hardy.c -o hwe.hardy.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c kin.morgan.c -o kin.morgan.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c makeped.c -o makeped.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c mia.c -o mia.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c muvar.c -o muvar.o g77 -fno-common -g -O2 -c pfc.f -o pfc.o g77 -fno-common -g -O2 -c pfc.sim.f -o pfc.sim.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c pgc.c -o pgc.o gcc-3.3 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/usr/local/include -fno-common -g -O2 -c whscore.c -o whscore.o gcc-3.3 -bundle -flat_namespace -undefined suppress -L/usr/local/lib -o gap.so 2k.o 2ld.o cline.o gc.o gcontrol.o gif.o hap.o hwe.hardy.o kin.morgan.o makeped.o mia.o muvar.o pfc.o pfc.sim.o pgc.o whscore.o -L/usr/local/lib/gcc/powerpc-apple-darwin6.8/3.4.2 -lg2c -lSystem -lcc_dynamic -framework R ld: warning multiple definitions of symbol _i1mach_ pfc.sim.o definition of _i1mach_ in section (__TEXT,__text) /Library/Frameworks/R.framework/R(i1mach.lo) definition of _i1mach_ ld: warning multiple definitions of symbol _xerbla_ /Library/Frameworks/R.framework/R(print.lo) definition of _xerbla_ /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib(single module) definition of _xerbla_ ld: warning multiple definitions of symbol _xmalloc gc.o definition of _xmalloc in section (__TEXT,__text) /Library/Frameworks/R.framework/Versions/2.1.1/Resources/lib/libreadline.5.0.dylib(xmalloc.so) definition of _xmalloc ** R ** data ** moving datasets to lazyload DB ** demo ** inst ** preparing package for lazy loading ** help >>> Building/Updating help pages for package 'gap' Formats: text html latex example aldh2 text html latex apoeapoc text html latex bt text html latex example cf text html latex chow.test text html latex example crohn text html latex fa text html latex fbsize text html latex example fsnps text html latex gap-internal text html latex gc.em text html latex example gcontrol text html latex example gcp text html latex example genecounting text html latex example gif text html latex example hap text html latex example hap.em text html latex example hap.score text html latex example hla text html latex htr text html latex example hwe text html latex example hwe.hardy text html latex example kbyl text html latex example kin.morgan text html latex example makeped text html latex example mao text html latex mia text html latex example mtdt text html latex example muvar text html latex example nep499 text html latex pbsize text html latex example pedtodot text html latex example pfc text html latex example pfc.sim text html latex example pgc text html latex example plot.hap.score text html latex example print.hap.score text html latex example s2k text html latex example snca text html latex tbyt text html latex example whscore text html latex example ** building package indices ... * DONE (gap) * Installing *source* package 'pointer' ... ** libs g77 -w -fno-common -g -O2 -c emx.f -o emx.o g77 -w -fno-common -g -O2 -c nucfama.f -o nucfama.o g77 -w -fno-common -g -O2 -c pointr.f -o pointr.o gcc-3.3 -bundle -flat_namespace -undefined suppress -L/usr/local/lib -o pointer.so emx.o nucfama.o pointr.o -L/usr/local/lib/gcc/powerpc-apple-darwin6.8/3.4.2 -lg2c -lSystem -lcc_dynamic -framework R ** R ** inst ** preparing package for lazy loading ** help >>> Building/Updating help pages for package 'pointer' Formats: text html latex example control.pointer text html latex example pointer text html latex example ** building package indices ... * DONE (pointer) * Installing *source* package 'pathmix' ... ** libs g77 -xf77-cpp-input -fno-common -g -O2 -c almini.f -o almini.o g77 -xf77-cpp-input -fno-common -g -O2 -c almize.f -o almize.o g77 -xf77-cpp-input -fno-common -g -O2 -c almtest.f -o almtest.o g77 -xf77-cpp-input -fno-common -g -O2 -c cpyfil.f -o cpyfil.o g77 -xf77-cpp-input -fno-common -g -O2 -c defalt3a.f -o defalt3a.o g77 -xf77-cpp-input -fno-common -g -O2 -c defalt3b.f -o defalt3b.o g77 -xf77-cpp-input -fno-common -g -O2 -c eval.f -o eval.o g77 -xf77-cpp-input -fno-common -g -O2 -c files.f -o files.o g77 -xf77-cpp-input -fno-common -g -O2 -c fmcard.f -o fmcard.o g77 -xf77-cpp-input -fno-common -g -O2 -c fun3a.f -o fun3a.o g77 -xf77-cpp-input -fno-common -g -O2 -c fun3b.f -o fun3b.o g77 -xf77-cpp-input -fno-common -g -O2 -c gemtest.f -o gemtest.o g77 -xf77-cpp-input -fno-common -g -O2 -c getfam.f -o getfam.o g77 -xf77-cpp-input -fno-common -g -O2 -c gof.f -o gof.o g77 -xf77-cpp-input -fno-common -g -O2 -c header.f -o header.o g77 -xf77-cpp-input -fno-common -g -O2 -c input3a.f -o input3a.o g77 -xf77-cpp-input -fno-common -g -O2 -c input3b.f -o input3b.o g77 -xf77-cpp-input -fno-common -g -O2 -c invert.f -o invert.o g77 -xf77-cpp-input -fno-common -g -O2 -c ixno.f -o ixno.o g77 -xf77-cpp-input -fno-common -g -O2 -c jacobi.f -o jacobi.o g77 -xf77-cpp-input -fno-common -g -O2 -c merlin.f -o merlin.o g77 -xf77-cpp-input -fno-common -g -O2 -c output3a.f -o output3a.o g77 -xf77-cpp-input -fno-common -g -O2 -c output3b.f -o output3b.o g77 -xf77-cpp-input -fno-common -g -O2 -c path3a.f -o path3a.o g77 -xf77-cpp-input -fno-common -g -O2 -c path3b.f -o path3b.o g77 -xf77-cpp-input -fno-common -g -O2 -c pathin.f -o pathin.o g77 -xf77-cpp-input -fno-common -g -O2 -c pdinv.f -o pdinv.o g77 -xf77-cpp-input -fno-common -g -O2 -c poof.f -o poof.o g77 -xf77-cpp-input -fno-common -g -O2 -c pxfamr.f -o pxfamr.o g77 -xf77-cpp-input -fno-common -g -O2 -c random.f -o random.o g77 -xf77-cpp-input -fno-common -g -O2 -c rdcorr.f -o rdcorr.o g77 -xf77-cpp-input -fno-common -g -O2 -c rdpait.f -o rdpait.o g77 -xf77-cpp-input -fno-common -g -O2 -c rhodef.f -o rhodef.o g77 -xf77-cpp-input -fno-common -g -O2 -c strlib.f -o strlib.o g77 -xf77-cpp-input -fno-common -g -O2 -c timeut.f -o timeut.o g77 -xf77-cpp-input -fno-common -g -O2 -c txcard.f -o txcard.o g77 -xf77-cpp-input -fno-common -g -O2 -c vap.f -o vap.o g77 -xf77-cpp-input -fno-common -g -O2 -c wrinit.f -o wrinit.o gcc-3.3 -bundle -flat_namespace -undefined suppress -L/usr/local/lib -o pathmix.so almini.o almize.o almtest.o cpyfil.o defalt3a.o defalt3b.o eval.o files.o fmcard.o fun3a.o fun3b.o gemtest.o getfam.o gof.o header.o input3a.o input3b.o invert.o ixno.o jacobi.o merlin.o output3a.o output3b.o path3a.o path3b.o pathin.o pdinv.o poof.o pxfamr.o random.o rdcorr.o rdpait.o rhodef.o strlib.o timeut.o txcard.o vap.o wrinit.o -L/usr/local/lib/gcc/powerpc-apple-darwin6.8/3.4.2 -lg2c -lSystem -lcc_dynamic -framework R ld: warning multiple definitions of symbol _xerbla_ /Library/Frameworks/R.framework/R(print.lo) definition of _xerbla_ /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib(single module) definition of _xerbla_ ** R ** inst ** preparing package for lazy loading ** help >>> Building/Updating help pages for package 'pathmix' Formats: text html latex example pathmix text html latex example ** building package indices ... * DONE (pathmix)