=> Bootstrap dependency digest>=20211023: found digest-20220214 ===> Skipping vulnerability checks. WARNING: No /usr/pkg/pkgdb/pkg-vulnerabilities file found. WARNING: To fix run: `/usr/sbin/pkg_admin -K /usr/pkg/pkgdb fetch-pkg-vulnerabilities'. ===> Building for py312-macs2-2.2.9.1 * Building wheel... /usr/pkg/lib/python3.12/site-packages/setuptools/_distutils/dist.py:270: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) running bdist_wheel running build running build_py creating build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/Constants.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/OptValidator.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/OutputWriter.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/__init__.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/bdgbroadcall_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/bdgcmp_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/bdgdiff_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/bdgopt_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/bdgpeakcall_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/callpeak_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/cmbreps_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/diffpeak_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/filterdup_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/pileup_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/predictd_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/randsample_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/refinepeak_cmd.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 creating build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO copying MACS2/IO/__init__.py -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO copying MACS2/cPosValCalculation.pxd -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 copying MACS2/khash.pxd -> build/lib.netbsd-9.3-amd64-cpython-312/MACS2 running build_ext building 'MACS2.Prob' extension creating build/temp.netbsd-9.3-amd64-cpython-312/MACS2 gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/Prob.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/Prob.o -w -O3 -ffast-math -g0 In file included from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1913:0, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5, from MACS2/Prob.c:1258: /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/Prob.o -L/usr/pkg/lib -lm -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/Prob.so building 'MACS2.IO.Parser' extension creating build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/IO/Parser.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/Parser.o -w -O3 -ffast-math -g0 In file included from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1913:0, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5, from MACS2/IO/Parser.c:1259: /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/Parser.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/Parser.so building 'MACS2.Pileup' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -IMACS2 -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/Pileup.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/Pileup.o -w -O3 -ffast-math -g0 In file included from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1913:0, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5, from MACS2/Pileup.c:1263: /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -IMACS2 -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/cPosValCalculation.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/cPosValCalculation.o -w -O3 -ffast-math -g0 gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/Pileup.o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/cPosValCalculation.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/Pileup.so building 'MACS2.PeakModel' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/PeakModel.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/PeakModel.o -w -O3 -ffast-math -g0 In file included from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1913:0, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5, from MACS2/PeakModel.c:1257: /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/PeakModel.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/PeakModel.so building 'MACS2.PeakDetect' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/include/python3.12 -c MACS2/PeakDetect.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/PeakDetect.o -w -O3 -ffast-math -g0 gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/PeakDetect.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/PeakDetect.so building 'MACS2.Signal' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/Signal.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/Signal.o -w -O3 -ffast-math -g0 In file included from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1913:0, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5, from MACS2/Signal.c:1257: /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/Signal.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/Signal.so building 'MACS2.IO.PeakIO' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/include/python3.12 -c MACS2/IO/PeakIO.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/PeakIO.o -w -O3 -ffast-math -g0 gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/PeakIO.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/PeakIO.so building 'MACS2.IO.BedGraphIO' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/include/python3.12 -c MACS2/IO/BedGraphIO.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/BedGraphIO.o -w -O3 -ffast-math -g0 gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/BedGraphIO.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/BedGraphIO.so building 'MACS2.IO.FixWidthTrack' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/IO/FixWidthTrack.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/FixWidthTrack.o -w -O3 -ffast-math -g0 In file included from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1913:0, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5, from MACS2/IO/FixWidthTrack.c:1259: /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/FixWidthTrack.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/FixWidthTrack.so building 'MACS2.IO.PairedEndTrack' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/IO/PairedEndTrack.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/PairedEndTrack.o -w -O3 -ffast-math -g0 In file included from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1913:0, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5, from MACS2/IO/PairedEndTrack.c:1257: /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/PairedEndTrack.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/PairedEndTrack.so building 'MACS2.IO.BedGraph' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/include/python3.12 -c MACS2/IO/BedGraph.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/BedGraph.o -w -O3 -ffast-math -g0 gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/BedGraph.o -L/usr/pkg/lib -lm -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/BedGraph.so building 'MACS2.IO.ScoreTrack' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/IO/ScoreTrack.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/ScoreTrack.o -w -O3 -ffast-math -g0 In file included from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1913:0, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5, from MACS2/IO/ScoreTrack.c:1257: /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/ScoreTrack.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/ScoreTrack.so building 'MACS2.IO.CallPeakUnit' extension gcc -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -fPIC -I/usr/pkg/lib/python3.12/site-packages/numpy/_core/include -I/usr/pkg/include/python3.12 -c MACS2/IO/CallPeakUnit.c -o build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/CallPeakUnit.o -w -O3 -ffast-math -g0 In file included from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h:1913:0, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h:12, from /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h:5, from MACS2/IO/CallPeakUnit.c:1257: /tmp/biology/py-macs2/work/.buildlink/lib/python3.12/site-packages/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ gcc -shared -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -L/usr/X11R7/lib -Wl,-R/usr/X11R7/lib -Wl,-zrelro -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O2 -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include -I/usr/include -I/usr/pkg/include/python3.12 -I/usr/pkg/include build/temp.netbsd-9.3-amd64-cpython-312/MACS2/IO/CallPeakUnit.o -L/usr/pkg/lib -o build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/CallPeakUnit.so running build_scripts creating build/scripts-3.12 copying and adjusting bin/macs2 -> build/scripts-3.12 changing mode of build/scripts-3.12/macs2 from 644 to 755 installing to build/bdist.netbsd-9.3-amd64/wheel running install running install_lib creating build/bdist.netbsd-9.3-amd64/wheel creating build/bdist.netbsd-9.3-amd64/wheel/MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/Constants.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/OptValidator.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/OutputWriter.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/__init__.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/bdgbroadcall_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/bdgcmp_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/bdgdiff_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/bdgopt_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/bdgpeakcall_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/callpeak_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/cmbreps_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/diffpeak_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/filterdup_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/pileup_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/predictd_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/randsample_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/refinepeak_cmd.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 creating build/bdist.netbsd-9.3-amd64/wheel/MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/__init__.py -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/Parser.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/PeakIO.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/BedGraphIO.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/FixWidthTrack.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/PairedEndTrack.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/BedGraph.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/ScoreTrack.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/IO/CallPeakUnit.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2/IO copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/cPosValCalculation.pxd -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/khash.pxd -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/Prob.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/Pileup.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/PeakModel.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/PeakDetect.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 copying build/lib.netbsd-9.3-amd64-cpython-312/MACS2/Signal.so -> build/bdist.netbsd-9.3-amd64/wheel/./MACS2 running install_egg_info running egg_info creating MACS2.egg-info writing MACS2.egg-info/PKG-INFO writing dependency_links to MACS2.egg-info/dependency_links.txt writing requirements to MACS2.egg-info/requires.txt writing top-level names to MACS2.egg-info/top_level.txt writing manifest file 'MACS2.egg-info/SOURCES.txt' dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative dependency /usr/pkg/lib/python3.12/site-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative reading manifest file 'MACS2.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching '.gitignore' warning: no previously-included files found matching '.travis.yml' warning: no previously-included files matching '.ipynb_checkpoints/*' found anywhere in distribution no previously-included directories found matching '.github' no previously-included directories found matching 'DOCKER' adding license file 'LICENSE' writing manifest file 'MACS2.egg-info/SOURCES.txt' Copying MACS2.egg-info to build/bdist.netbsd-9.3-amd64/wheel/./MACS2-2.2.9.1-py3.12.egg-info running install_scripts creating build/bdist.netbsd-9.3-amd64/wheel/macs2-2.2.9.1.data/scripts copying build/scripts-3.12/macs2 -> build/bdist.netbsd-9.3-amd64/wheel/macs2-2.2.9.1.data/scripts changing mode of build/bdist.netbsd-9.3-amd64/wheel/macs2-2.2.9.1.data/scripts/macs2 to 755 creating build/bdist.netbsd-9.3-amd64/wheel/macs2-2.2.9.1.dist-info/WHEEL creating '/tmp/biology/py-macs2/work/MACS-2.2.9.1/dist/.tmp-mhalhik3/macs2-2.2.9.1-cp312-cp312-netbsd_9_3_amd64.whl' and adding 'build/bdist.netbsd-9.3-amd64/wheel' to it adding 'MACS2/Constants.py' adding 'MACS2/OptValidator.py' adding 'MACS2/OutputWriter.py' adding 'MACS2/PeakDetect.so' adding 'MACS2/PeakModel.so' adding 'MACS2/Pileup.so' adding 'MACS2/Prob.so' adding 'MACS2/Signal.so' adding 'MACS2/__init__.py' adding 'MACS2/bdgbroadcall_cmd.py' adding 'MACS2/bdgcmp_cmd.py' adding 'MACS2/bdgdiff_cmd.py' adding 'MACS2/bdgopt_cmd.py' adding 'MACS2/bdgpeakcall_cmd.py' adding 'MACS2/cPosValCalculation.pxd' adding 'MACS2/callpeak_cmd.py' adding 'MACS2/cmbreps_cmd.py' adding 'MACS2/diffpeak_cmd.py' adding 'MACS2/filterdup_cmd.py' adding 'MACS2/khash.pxd' adding 'MACS2/pileup_cmd.py' adding 'MACS2/predictd_cmd.py' adding 'MACS2/randsample_cmd.py' adding 'MACS2/refinepeak_cmd.py' adding 'MACS2/IO/BedGraph.so' adding 'MACS2/IO/BedGraphIO.so' adding 'MACS2/IO/CallPeakUnit.so' adding 'MACS2/IO/FixWidthTrack.so' adding 'MACS2/IO/PairedEndTrack.so' adding 'MACS2/IO/Parser.so' adding 'MACS2/IO/PeakIO.so' adding 'MACS2/IO/ScoreTrack.so' adding 'MACS2/IO/__init__.py' adding 'macs2-2.2.9.1.data/scripts/macs2' adding 'macs2-2.2.9.1.dist-info/LICENSE' adding 'macs2-2.2.9.1.dist-info/METADATA' adding 'macs2-2.2.9.1.dist-info/WHEEL' adding 'macs2-2.2.9.1.dist-info/top_level.txt' adding 'macs2-2.2.9.1.dist-info/RECORD' removing build/bdist.netbsd-9.3-amd64/wheel Successfully built macs2-2.2.9.1-cp312-cp312-netbsd_9_3_amd64.whl