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###
### Running command:
###
###   rm -rf NuPoP.buildbin-libdir && mkdir NuPoP.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh NuPoP_2.6.3.tar.gz /Library/Frameworks/R.framework/Resources/bin/R NuPoP.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=NuPoP.buildbin-libdir NuPoP_2.6.3.tar.gz'
>>>>>>> 

* installing *source* package ‘NuPoP’ ...
** using staged installation
** libs
/opt/R/arm64/bin/gfortran -mtune=native -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c  cvtbfb.f90 -o cvtbfb.o
/opt/R/arm64/bin/gfortran -mtune=native -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c  cvtbfbNL4.f90 -o cvtbfbNL4.o
cvtbfbNL4.f90:13:51:

   13 |   real*8    freqN4(4,4,4,4),tranN4(5:147,4,4,4,4,4),freqL4(4,4,4,4)
      |                                                   1
Warning: Array ‘trann4’ at (1) is larger than limit set by ‘-fmax-stack-var-size=’, moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the ‘-fmax-stack-var-size=’ limit (or use ‘-frecursive’, which implies unlimited ‘-fmax-stack-var-size’) - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising]
/opt/R/arm64/bin/gfortran -mtune=native -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c  vtbfb.f90 -o vtbfb.o
/opt/R/arm64/bin/gfortran -mtune=native -fno-optimize-sibling-calls  -fPIC  -Wall -g -O2  -c  vtbfbNL4.f90 -o vtbfbNL4.o
vtbfbNL4.f90:13:51:

   13 |   real*8    freqN4(4,4,4,4),tranN4(5:147,4,4,4,4,4),freqL4(4,4,4,4)
      |                                                   1
Warning: Array ‘trann4’ at (1) is larger than limit set by ‘-fmax-stack-var-size=’, moved from stack to static storage. This makes the procedure unsafe when called recursively, or concurrently from multiple threads. Consider increasing the ‘-fmax-stack-var-size=’ limit (or use ‘-frecursive’, which implies unlimited ‘-fmax-stack-var-size’) - or change the code to use an ALLOCATABLE array. If the variable is never accessed concurrently, this warning can be ignored, and the variable could also be declared with the SAVE attribute. [-Wsurprising]
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 NuPoP.so cvtbfb.o cvtbfbNL4.o vtbfb.o vtbfbNL4.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 _cvtbfb_: does not use standard frame
ld: warning: could not create compact unwind for _cvtbfbnl4_: does not use standard frame
ld: warning: could not create compact unwind for _vtbfb_: does not use standard frame
ld: warning: could not create compact unwind for _vtbfbnl4_: does not use standard 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/NuPoP.buildbin-libdir/00LOCK-NuPoP/00new/NuPoP/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** 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 (NuPoP)


>>>>>>> 
>>>>>>> FIXING LINKS FOR NuPoP.buildbin-libdir/NuPoP/libs/NuPoP.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" "NuPoP.buildbin-libdir/NuPoP/libs/NuPoP.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" "NuPoP.buildbin-libdir/NuPoP/libs/NuPoP.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" "NuPoP.buildbin-libdir/NuPoP/libs/NuPoP.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" "NuPoP.buildbin-libdir/NuPoP/libs/NuPoP.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" "NuPoP.buildbin-libdir/NuPoP/libs/NuPoP.so"