############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf impute.buildbin-libdir && mkdir impute.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh impute_1.72.3.tar.gz /Library/Frameworks/R.framework/Resources/bin/R impute.buildbin-libdir ### ############################################################################## ############################################################################## >>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=impute.buildbin-libdir impute_1.72.3.tar.gz' >>>>>>> * installing *source* package ‘impute’ ... ** using staged installation ** libs /opt/R/arm64/bin/gfortran -mtune=native -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c knnimpute.f -o knnimpute.o f951: Warning: Nonconforming tab character in column 1 of line 89 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 91 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 92 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 93 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 94 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 95 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 96 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 97 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 98 [-Wtabs] f951: Warning: Nonconforming tab character in column 3 of line 99 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 100 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 101 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 102 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 103 [-Wtabs] f951: Warning: Nonconforming tab character in column 3 of line 104 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 105 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 106 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 107 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 108 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 109 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 110 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 111 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 112 [-Wtabs] f951: Warning: Nonconforming tab character in column 3 of line 113 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 114 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 115 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 116 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 117 [-Wtabs] f951: Warning: Nonconforming tab character in column 3 of line 118 [-Wtabs] f951: Warning: Nonconforming tab character in column 3 of line 119 [-Wtabs] f951: Warning: Nonconforming tab character in column 3 of line 120 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 121 [-Wtabs] f951: Warning: Nonconforming tab character in column 1 of line 122 [-Wtabs] knnimpute.f:99:72: 99 | 20 pos(k1+1) = pos(k1) | 1 Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 20 at (1) knnimpute.f:113:72: 113 | 35 pos(k1+1) = pos(k1) | 1 Warning: Fortran 2018 deleted feature: DO termination statement which is not END DO or CONTINUE with label 35 at (1) knnimpute.f:168:72: 168 | ratio=dabs(dnew-dold)/dold | ^ Warning: ‘dold’ may be used uninitialized [-Wmaybe-uninitialized] knnimpute.f:132:33: 132 | double precision ratio,dold,dnew | ^ note: ‘dold’ was declared here clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o impute.so knnimpute.o -L/opt/R/arm64/gfortran/lib/gcc/aarch64-apple-darwin20.6.0/12.0.1 -L/opt/R/arm64/gfortran/lib -lgfortran -lemutls_w -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation ld: warning: -undefined dynamic_lookup may not work with chained fixups ld: warning: could not create compact unwind for _misave_: register 26 saved somewhere other than in frame ld: warning: could not create compact unwind for _misdis_: registers 27 and 28 not saved contiguously in frame ld: warning: could not create compact unwind for _porder_: register 73 saved somewhere other than in frame ld: warning: could not create compact unwind for _knnimp_: registers 27 and 28 not saved contiguously in frame ld: warning: could not create compact unwind for _twomis_: registers 74 and 75 not saved contiguously in frame ld: warning: could not create compact unwind for ___emutls_get_address: registers 23 and 24 not saved contiguously in frame installing to /Volumes/External/bbs-3.16-bioc-m1/meat/impute.buildbin-libdir/00LOCK-impute/00new/impute/libs ** R ** data ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (impute) >>>>>>> >>>>>>> FIXING LINKS FOR impute.buildbin-libdir/impute/libs/impute.so >>>>>>> install_name_tool -change "/opt/R/arm64/lib/libgcc_s.1.1.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libgcc_s.1.1.dylib" "impute.buildbin-libdir/impute/libs/impute.so" install_name_tool -change "/opt/R/arm64/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libgfortran.5.dylib" "impute.buildbin-libdir/impute/libs/impute.so" install_name_tool -change "/opt/R/arm64/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libquadmath.0.dylib" "impute.buildbin-libdir/impute/libs/impute.so" install_name_tool -change "/opt/R/arm64/gfortran/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libgfortran.5.dylib" "impute.buildbin-libdir/impute/libs/impute.so" install_name_tool -change "/opt/R/arm64/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libquadmath.0.dylib" "impute.buildbin-libdir/impute/libs/impute.so"