[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir conf97599.dir
<.> /bin/mkdir -p conf97599.dir
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir -p .
<.> /bin/mkdir -p -p .
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir --version
<.> /bin/mkdir -p --version
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir .tst
<.> /bin/mkdir -p .tst
[*] c++ --version
<.> /usr/bin/clang++ -m64 --version -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] c++ -v
<.> /usr/bin/clang++ -m64 -v -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] c++ -V
<.> /usr/bin/clang++ -m64 -V -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] c++ -qversion
<.> /usr/bin/clang++ -m64 -qversion -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] c++ -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.cpp
<.> /usr/bin/clang++ -m64 -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.cpp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.cpp
<.> /usr/bin/clang++ -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.cpp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.cpp
<.> /usr/bin/clang++ -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.cpp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.cpp
<.> /usr/bin/clang++ -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.cpp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.cpp
<.> /usr/bin/clang++ -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.cpp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -c -g -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.cpp
<.> /usr/bin/clang++ -m64 -c -g -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.cpp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.cpp
<.> /usr/bin/clang++ -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.cpp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir conftest.dir
<.> /bin/mkdir -p conftest.dir
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir sub
<.> /bin/mkdir -p sub
[*] c++ -MT sub/conftest.o -MD -MP -MF sub/conftest.TPo -c -o sub/conftest.o sub/conftest.c
<.> /usr/bin/clang++ -m64 -MT sub/conftest.o -MD -MP -MF sub/conftest.TPo -c -o sub/conftest.o sub/conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] cc --version
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 --version -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] cc -v
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -v -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] cc -V
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -V -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] cc -qversion
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -qversion -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] cc -version
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -version -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -g -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -g -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c conftest.c -o conftest2.o
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c conftest.c -o conftest2.o -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] cc -c conftest.c -o conftest2.o
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c conftest.c -o conftest2.o -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir conftest.dir
<.> /bin/mkdir -p conftest.dir
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir sub
<.> /bin/mkdir -p sub
[*] cc -MT sub/conftest.o -MD -MP -MF sub/conftest.TPo -c -o sub/conftest.o sub/conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -MT sub/conftest.o -MD -MP -MF sub/conftest.TPo -c -o sub/conftest.o sub/conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk -I/var/tmp/work/biology/stacks/work/.buildlink/include
[*] c++ -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.cpp
<.> /usr/bin/clang++ -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.cpp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -c -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 conftest.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -c -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 conftest.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.c -lz -lgomp
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.c -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -I/opt/pkg/include -I/opt/pkg/include/python3.13 -L/opt/pkg/lib conftest.cpp -lz -lgomp
<.> /usr/bin/clang++ -m64 -o conftest -pipe -Os -Xpreprocessor -fopenmp -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -L/var/tmp/work/biology/stacks/work/.buildlink/lib conftest.cpp -lz -lgomp -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir conf2411.dir
<.> /bin/mkdir -p conf2411.dir
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir -p .
<.> /bin/mkdir -p -p .
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir src/.deps
<.> /bin/mkdir -p src/.deps
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir ./.deps
<.> /bin/mkdir -p ./.deps
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir cram/.deps
<.> /bin/mkdir -p cram/.deps
[*] /var/tmp/work/biology/stacks/work/.tools/bin/mkdir os/.deps
<.> /bin/mkdir -p os/.deps
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT bcf_sr_sort.o -MD -MP -MF .deps/bcf_sr_sort.Tpo -c -o bcf_sr_sort.o bcf_sr_sort.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT bcf_sr_sort.o -MD -MP -MF .deps/bcf_sr_sort.Tpo -c -o bcf_sr_sort.o bcf_sr_sort.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT bgzf.o -MD -MP -MF .deps/bgzf.Tpo -c -o bgzf.o bgzf.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT bgzf.o -MD -MP -MF .deps/bgzf.Tpo -c -o bgzf.o bgzf.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT bgzip.o -MD -MP -MF .deps/bgzip.Tpo -c -o bgzip.o bgzip.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT bgzip.o -MD -MP -MF .deps/bgzip.Tpo -c -o bgzip.o bgzip.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT errmod.o -MD -MP -MF .deps/errmod.Tpo -c -o errmod.o errmod.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT errmod.o -MD -MP -MF .deps/errmod.Tpo -c -o errmod.o errmod.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT faidx.o -MD -MP -MF .deps/faidx.Tpo -c -o faidx.o faidx.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT faidx.o -MD -MP -MF .deps/faidx.Tpo -c -o faidx.o faidx.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT hfile.o -MD -MP -MF .deps/hfile.Tpo -c -o hfile.o hfile.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT hfile.o -MD -MP -MF .deps/hfile.Tpo -c -o hfile.o hfile.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT hfile_net.o -MD -MP -MF .deps/hfile_net.Tpo -c -o hfile_net.o hfile_net.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT hfile_net.o -MD -MP -MF .deps/hfile_net.Tpo -c -o hfile_net.o hfile_net.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT hts.o -MD -MP -MF .deps/hts.Tpo -c -o hts.o hts.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT hts.o -MD -MP -MF .deps/hts.Tpo -c -o hts.o hts.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT hts_os.o -MD -MP -MF .deps/hts_os.Tpo -c -o hts_os.o hts_os.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT hts_os.o -MD -MP -MF .deps/hts_os.Tpo -c -o hts_os.o hts_os.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT htsfile.o -MD -MP -MF .deps/htsfile.Tpo -c -o htsfile.o htsfile.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT htsfile.o -MD -MP -MF .deps/htsfile.Tpo -c -o htsfile.o htsfile.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT kfunc.o -MD -MP -MF .deps/kfunc.Tpo -c -o kfunc.o kfunc.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT kfunc.o -MD -MP -MF .deps/kfunc.Tpo -c -o kfunc.o kfunc.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT knetfile.o -MD -MP -MF .deps/knetfile.Tpo -c -o knetfile.o knetfile.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT knetfile.o -MD -MP -MF .deps/knetfile.Tpo -c -o knetfile.o knetfile.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT kstring.o -MD -MP -MF .deps/kstring.Tpo -c -o kstring.o kstring.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT kstring.o -MD -MP -MF .deps/kstring.Tpo -c -o kstring.o kstring.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT md5.o -MD -MP -MF .deps/md5.Tpo -c -o md5.o md5.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT md5.o -MD -MP -MF .deps/md5.Tpo -c -o md5.o md5.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT multipart.o -MD -MP -MF .deps/multipart.Tpo -c -o multipart.o multipart.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT multipart.o -MD -MP -MF .deps/multipart.Tpo -c -o multipart.o multipart.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/cram_codecs.o -MD -MP -MF cram/.deps/cram_codecs.Tpo -c -o cram/cram_codecs.o cram/cram_codecs.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/cram_codecs.o -MD -MP -MF cram/.deps/cram_codecs.Tpo -c -o cram/cram_codecs.o cram/cram_codecs.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/cram_decode.o -MD -MP -MF cram/.deps/cram_decode.Tpo -c -o cram/cram_decode.o cram/cram_decode.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/cram_decode.o -MD -MP -MF cram/.deps/cram_decode.Tpo -c -o cram/cram_decode.o cram/cram_decode.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/cram_encode.o -MD -MP -MF cram/.deps/cram_encode.Tpo -c -o cram/cram_encode.o cram/cram_encode.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/cram_encode.o -MD -MP -MF cram/.deps/cram_encode.Tpo -c -o cram/cram_encode.o cram/cram_encode.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/cram_external.o -MD -MP -MF cram/.deps/cram_external.Tpo -c -o cram/cram_external.o cram/cram_external.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/cram_external.o -MD -MP -MF cram/.deps/cram_external.Tpo -c -o cram/cram_external.o cram/cram_external.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/cram_index.o -MD -MP -MF cram/.deps/cram_index.Tpo -c -o cram/cram_index.o cram/cram_index.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/cram_index.o -MD -MP -MF cram/.deps/cram_index.Tpo -c -o cram/cram_index.o cram/cram_index.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/cram_io.o -MD -MP -MF cram/.deps/cram_io.Tpo -c -o cram/cram_io.o cram/cram_io.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/cram_io.o -MD -MP -MF cram/.deps/cram_io.Tpo -c -o cram/cram_io.o cram/cram_io.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/cram_samtools.o -MD -MP -MF cram/.deps/cram_samtools.Tpo -c -o cram/cram_samtools.o cram/cram_samtools.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/cram_samtools.o -MD -MP -MF cram/.deps/cram_samtools.Tpo -c -o cram/cram_samtools.o cram/cram_samtools.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/cram_stats.o -MD -MP -MF cram/.deps/cram_stats.Tpo -c -o cram/cram_stats.o cram/cram_stats.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/cram_stats.o -MD -MP -MF cram/.deps/cram_stats.Tpo -c -o cram/cram_stats.o cram/cram_stats.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/files.o -MD -MP -MF cram/.deps/files.Tpo -c -o cram/files.o cram/files.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/files.o -MD -MP -MF cram/.deps/files.Tpo -c -o cram/files.o cram/files.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/mFILE.o -MD -MP -MF cram/.deps/mFILE.Tpo -c -o cram/mFILE.o cram/mFILE.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/mFILE.o -MD -MP -MF cram/.deps/mFILE.Tpo -c -o cram/mFILE.o cram/mFILE.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/open_trace_file.o -MD -MP -MF cram/.deps/open_trace_file.Tpo -c -o cram/open_trace_file.o cram/open_trace_file.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/open_trace_file.o -MD -MP -MF cram/.deps/open_trace_file.Tpo -c -o cram/open_trace_file.o cram/open_trace_file.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/pooled_alloc.o -MD -MP -MF cram/.deps/pooled_alloc.Tpo -c -o cram/pooled_alloc.o cram/pooled_alloc.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/pooled_alloc.o -MD -MP -MF cram/.deps/pooled_alloc.Tpo -c -o cram/pooled_alloc.o cram/pooled_alloc.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/rANS_static.o -MD -MP -MF cram/.deps/rANS_static.Tpo -c -o cram/rANS_static.o cram/rANS_static.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/rANS_static.o -MD -MP -MF cram/.deps/rANS_static.Tpo -c -o cram/rANS_static.o cram/rANS_static.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/sam_header.o -MD -MP -MF cram/.deps/sam_header.Tpo -c -o cram/sam_header.o cram/sam_header.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/sam_header.o -MD -MP -MF cram/.deps/sam_header.Tpo -c -o cram/sam_header.o cram/sam_header.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT cram/string_alloc.o -MD -MP -MF cram/.deps/string_alloc.Tpo -c -o cram/string_alloc.o cram/string_alloc.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT cram/string_alloc.o -MD -MP -MF cram/.deps/string_alloc.Tpo -c -o cram/string_alloc.o cram/string_alloc.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT probaln.o -MD -MP -MF .deps/probaln.Tpo -c -o probaln.o probaln.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT probaln.o -MD -MP -MF .deps/probaln.Tpo -c -o probaln.o probaln.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT realn.o -MD -MP -MF .deps/realn.Tpo -c -o realn.o realn.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT realn.o -MD -MP -MF .deps/realn.Tpo -c -o realn.o realn.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT regidx.o -MD -MP -MF .deps/regidx.Tpo -c -o regidx.o regidx.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT regidx.o -MD -MP -MF .deps/regidx.Tpo -c -o regidx.o regidx.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT sam.o -MD -MP -MF .deps/sam.Tpo -c -o sam.o sam.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT sam.o -MD -MP -MF .deps/sam.Tpo -c -o sam.o sam.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT synced_bcf_reader.o -MD -MP -MF .deps/synced_bcf_reader.Tpo -c -o synced_bcf_reader.o synced_bcf_reader.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT synced_bcf_reader.o -MD -MP -MF .deps/synced_bcf_reader.Tpo -c -o synced_bcf_reader.o synced_bcf_reader.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT tabix.o -MD -MP -MF .deps/tabix.Tpo -c -o tabix.o tabix.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT tabix.o -MD -MP -MF .deps/tabix.Tpo -c -o tabix.o tabix.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT tbx.o -MD -MP -MF .deps/tbx.Tpo -c -o tbx.o tbx.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT tbx.o -MD -MP -MF .deps/tbx.Tpo -c -o tbx.o tbx.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT textutils.o -MD -MP -MF .deps/textutils.Tpo -c -o textutils.o textutils.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT textutils.o -MD -MP -MF .deps/textutils.Tpo -c -o textutils.o textutils.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT thread_pool.o -MD -MP -MF .deps/thread_pool.Tpo -c -o thread_pool.o thread_pool.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT thread_pool.o -MD -MP -MF .deps/thread_pool.Tpo -c -o thread_pool.o thread_pool.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT vcf.o -MD -MP -MF .deps/vcf.Tpo -c -o vcf.o vcf.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT vcf.o -MD -MP -MF .deps/vcf.Tpo -c -o vcf.o vcf.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT vcf_sweep.o -MD -MP -MF .deps/vcf_sweep.Tpo -c -o vcf_sweep.o vcf_sweep.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT vcf_sweep.o -MD -MP -MF .deps/vcf_sweep.Tpo -c -o vcf_sweep.o vcf_sweep.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT vcfutils.o -MD -MP -MF .deps/vcfutils.Tpo -c -o vcfutils.o vcfutils.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT vcfutils.o -MD -MP -MF .deps/vcfutils.Tpo -c -o vcfutils.o vcfutils.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] cc -DHAVE_CONFIG_H -I. -I.. -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT os/rand.o -MD -MP -MF os/.deps/rand.Tpo -c -o os/rand.o os/rand.c
<.> /usr/bin/clang -fcommon -Wno-error=implicit-function-declaration -Wno-error=implicit-int -Wno-error=int-conversion -Wno-error=incompatible-pointer-types -m64 -DHAVE_CONFIG_H -I. -I.. -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT os/rand.o -MD -MP -MF os/.deps/rand.Tpo -c -o os/rand.o os/rand.c -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/kmers.o -MD -MP -MF src/.deps/kmers.Tpo -c -o src/kmers.o src/kmers.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/kmers.o -MD -MP -MF src/.deps/kmers.Tpo -c -o src/kmers.o src/kmers.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/file_io.o -MD -MP -MF src/.deps/file_io.Tpo -c -o src/file_io.o src/file_io.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/file_io.o -MD -MP -MF src/.deps/file_io.Tpo -c -o src/file_io.o src/file_io.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/clean.o -MD -MP -MF src/.deps/clean.Tpo -c -o src/clean.o src/clean.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/clean.o -MD -MP -MF src/.deps/clean.Tpo -c -o src/clean.o src/clean.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/write.o -MD -MP -MF src/.deps/write.Tpo -c -o src/write.o src/write.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/write.o -MD -MP -MF src/.deps/write.Tpo -c -o src/write.o src/write.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/aln_utils.o -MD -MP -MF src/.deps/aln_utils.Tpo -c -o src/aln_utils.o src/aln_utils.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/aln_utils.o -MD -MP -MF src/.deps/aln_utils.Tpo -c -o src/aln_utils.o src/aln_utils.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/BamI.o -MD -MP -MF src/.deps/BamI.Tpo -c -o src/BamI.o src/BamI.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/BamI.o -MD -MP -MF src/.deps/BamI.Tpo -c -o src/BamI.o src/BamI.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/catalog_utils.o -MD -MP -MF src/.deps/catalog_utils.Tpo -c -o src/catalog_utils.o src/catalog_utils.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/catalog_utils.o -MD -MP -MF src/.deps/catalog_utils.Tpo -c -o src/catalog_utils.o src/catalog_utils.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/cmb.o -MD -MP -MF src/.deps/cmb.Tpo -c -o src/cmb.o src/cmb.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/cmb.o -MD -MP -MF src/.deps/cmb.Tpo -c -o src/cmb.o src/cmb.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/constants.o -MD -MP -MF src/.deps/constants.Tpo -c -o src/constants.o src/constants.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/constants.o -MD -MP -MF src/.deps/constants.Tpo -c -o src/constants.o src/constants.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/DNANSeq.o -MD -MP -MF src/.deps/DNANSeq.Tpo -c -o src/DNANSeq.o src/DNANSeq.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/DNANSeq.o -MD -MP -MF src/.deps/DNANSeq.Tpo -c -o src/DNANSeq.o src/DNANSeq.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/DNASeq4.o -MD -MP -MF src/.deps/DNASeq4.Tpo -c -o src/DNASeq4.o src/DNASeq4.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/DNASeq4.o -MD -MP -MF src/.deps/DNASeq4.Tpo -c -o src/DNASeq4.o src/DNASeq4.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/DNASeq.o -MD -MP -MF src/.deps/DNASeq.Tpo -c -o src/DNASeq.o src/DNASeq.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/DNASeq.o -MD -MP -MF src/.deps/DNASeq.Tpo -c -o src/DNASeq.o src/DNASeq.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/gzFasta.o -MD -MP -MF src/.deps/gzFasta.Tpo -c -o src/gzFasta.o src/gzFasta.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/gzFasta.o -MD -MP -MF src/.deps/gzFasta.Tpo -c -o src/gzFasta.o src/gzFasta.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/input.o -MD -MP -MF src/.deps/input.Tpo -c -o src/input.o src/input.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/input.o -MD -MP -MF src/.deps/input.Tpo -c -o src/input.o src/input.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/locus.o -MD -MP -MF src/.deps/locus.Tpo -c -o src/locus.o src/locus.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/locus.o -MD -MP -MF src/.deps/locus.Tpo -c -o src/locus.o src/locus.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/log_utils.o -MD -MP -MF src/.deps/log_utils.Tpo -c -o src/log_utils.o src/log_utils.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/log_utils.o -MD -MP -MF src/.deps/log_utils.Tpo -c -o src/log_utils.o src/log_utils.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/MetaPopInfo.o -MD -MP -MF src/.deps/MetaPopInfo.Tpo -c -o src/MetaPopInfo.o src/MetaPopInfo.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/MetaPopInfo.o -MD -MP -MF src/.deps/MetaPopInfo.Tpo -c -o src/MetaPopInfo.o src/MetaPopInfo.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk
[*] c++ -DHAVE_CONFIG_H -I. -I./htslib -I/opt/pkg/include -I/opt/pkg/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -I/opt/pkg/include -I/opt/pkg/include/python3.13 -MT src/models.o -MD -MP -MF src/.deps/models.Tpo -c -o src/models.o src/models.cc
<.> /usr/bin/clang++ -m64 -DHAVE_CONFIG_H -I. -I./htslib -I/var/tmp/work/biology/stacks/work/.buildlink/include -I/var/tmp/work/biology/stacks/work/.buildlink/include/python3.13 -pipe -Os -Xpreprocessor -fopenmp -MT src/models.o -MD -MP -MF src/.deps/models.Tpo -c -o src/models.o src/models.cc -isysroot /Applications/Xcode-16.4.0.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.5.sdk