+ case "${usergroup_phase}" in + local run_cmd + run_cmd=run_su + shift + run_su /opt/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent PYTHON_VERSION_REQD=311 WRKLOG=/tmp/bulklog/py311-macs3-3.0.2nb2/work.log + su pbulk -c '"$@"' make /opt/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent PYTHON_VERSION_REQD=311 WRKLOG=/tmp/bulklog/py311-macs3-3.0.2nb2/work.log ===> Building for py311-macs3-3.0.2nb2 * Building wheel... Compiling MACS3/Signal/HMMR_EM.pyx because it changed. Compiling MACS3/Signal/HMMR_Signal_Processing.pyx because it changed. Compiling MACS3/Signal/HMMR_HMM.pyx because it changed. Compiling MACS3/Signal/Prob.pyx because it changed. Compiling MACS3/Signal/Region.pyx because it changed. Compiling MACS3/Signal/Pileup.pyx because it changed. Compiling MACS3/Signal/PileupV2.pyx because it changed. Compiling MACS3/Signal/PeakModel.pyx because it changed. Compiling MACS3/Signal/PeakDetect.pyx because it changed. Compiling MACS3/Signal/SignalProcessing.pyx because it changed. Compiling MACS3/Signal/FixWidthTrack.pyx because it changed. Compiling MACS3/Signal/PairedEndTrack.pyx because it changed. Compiling MACS3/Signal/BedGraph.pyx because it changed. Compiling MACS3/Signal/ScoreTrack.pyx because it changed. Compiling MACS3/Signal/CallPeakUnit.pyx because it changed. Compiling MACS3/Signal/VariantStat.pyx because it changed. Compiling MACS3/Signal/ReadAlignment.pyx because it changed. Compiling MACS3/Signal/RACollection.pyx because it changed. Compiling MACS3/Signal/UnitigRACollection.pyx because it changed. Compiling MACS3/Signal/PosReadsInfo.pyx because it changed. Compiling MACS3/Signal/PeakVariants.pyx because it changed. Compiling MACS3/IO/Parser.pyx because it changed. Compiling MACS3/IO/PeakIO.pyx because it changed. Compiling MACS3/IO/BedGraphIO.pyx because it changed. Compiling MACS3/IO/BAM.pyx because it changed. [ 1/25] Cythonizing MACS3/IO/BAM.pyx [ 2/25] Cythonizing MACS3/IO/BedGraphIO.pyx [ 3/25] Cythonizing MACS3/IO/Parser.pyx [ 4/25] Cythonizing MACS3/IO/PeakIO.pyx [ 5/25] Cythonizing MACS3/Signal/BedGraph.pyx [ 6/25] Cythonizing MACS3/Signal/CallPeakUnit.pyx [ 7/25] Cythonizing MACS3/Signal/FixWidthTrack.pyx [ 8/25] Cythonizing MACS3/Signal/HMMR_EM.pyx [ 9/25] Cythonizing MACS3/Signal/HMMR_HMM.pyx [10/25] Cythonizing MACS3/Signal/HMMR_Signal_Processing.pyx [11/25] Cythonizing MACS3/Signal/PairedEndTrack.pyx [12/25] Cythonizing MACS3/Signal/PeakDetect.pyx [13/25] Cythonizing MACS3/Signal/PeakModel.pyx [14/25] Cythonizing MACS3/Signal/PeakVariants.pyx [15/25] Cythonizing MACS3/Signal/Pileup.pyx [16/25] Cythonizing MACS3/Signal/PileupV2.pyx [17/25] Cythonizing MACS3/Signal/PosReadsInfo.pyx [18/25] Cythonizing MACS3/Signal/Prob.pyx [19/25] Cythonizing MACS3/Signal/RACollection.pyx [20/25] Cythonizing MACS3/Signal/ReadAlignment.pyx [21/25] Cythonizing MACS3/Signal/Region.pyx [22/25] Cythonizing MACS3/Signal/ScoreTrack.pyx [23/25] Cythonizing MACS3/Signal/SignalProcessing.pyx [24/25] Cythonizing MACS3/Signal/UnitigRACollection.pyx [25/25] Cythonizing MACS3/Signal/VariantStat.pyx /opt/pkg/lib/python3.11/site-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: BSD License See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running bdist_wheel running build running build_py creating build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3 copying MACS3/__init__.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3 creating build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/IO copying MACS3/IO/__init__.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/IO copying MACS3/IO/OutputWriter.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/IO creating build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal copying MACS3/Signal/__init__.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal creating build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/bdgbroadcall_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/callpeak_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/pileup_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/bdgpeakcall_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/bdgcmp_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/callvar_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/cmbreps_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/diffpeak_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/refinepeak_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/__init__.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/filterdup_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/bdgopt_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/hmmratac_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/predictd_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/bdgdiff_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands copying MACS3/Commands/randsample_cmd.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Commands creating build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Utilities copying MACS3/Utilities/Logger.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Utilities copying MACS3/Utilities/__init__.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Utilities copying MACS3/Utilities/OptValidator.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Utilities copying MACS3/Utilities/Constants.py -> build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Utilities running build_ext building 'MACS3.Signal.HMMR_EM' extension creating build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/HMMR_EM.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/HMMR_EM.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/HMMR_EM.o -L/opt/pkg/lib -lm -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/HMMR_EM.so building 'MACS3.Signal.HMMR_Signal_Processing' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/HMMR_Signal_Processing.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/HMMR_Signal_Processing.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/HMMR_Signal_Processing.o -L/opt/pkg/lib -lm -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/HMMR_Signal_Processing.so building 'MACS3.Signal.HMMR_HMM' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/HMMR_HMM.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/HMMR_HMM.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/HMMR_HMM.o -L/opt/pkg/lib -lm -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/HMMR_HMM.so building 'MACS3.Signal.Prob' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/Prob.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/Prob.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/Prob.o -L/opt/pkg/lib -lm -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/Prob.so building 'MACS3.Signal.Region' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/Region.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/Region.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/Region.o -L/opt/pkg/lib -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/Region.so building 'MACS3.Signal.Pileup' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/Pileup.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/Pileup.o -w -O3 -g0 gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/cPosValCalculation.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/cPosValCalculation.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/Pileup.o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/cPosValCalculation.o -L/opt/pkg/lib -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/Pileup.so building 'MACS3.Signal.PileupV2' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/PileupV2.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PileupV2.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PileupV2.o -L/opt/pkg/lib -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PileupV2.so building 'MACS3.Signal.PeakModel' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/PeakModel.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PeakModel.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PeakModel.o -L/opt/pkg/lib -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PeakModel.so building 'MACS3.Signal.PeakDetect' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/include/python3.11 -c MACS3/Signal/PeakDetect.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PeakDetect.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PeakDetect.o -L/opt/pkg/lib -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PeakDetect.so building 'MACS3.Signal.SignalProcessing' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/SignalProcessing.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/SignalProcessing.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/SignalProcessing.o -L/opt/pkg/lib -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/SignalProcessing.so building 'MACS3.Signal.FixWidthTrack' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/FixWidthTrack.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/FixWidthTrack.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/FixWidthTrack.o -L/opt/pkg/lib -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/FixWidthTrack.so building 'MACS3.Signal.PairedEndTrack' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/PairedEndTrack.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PairedEndTrack.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PairedEndTrack.o -L/opt/pkg/lib -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/PairedEndTrack.so building 'MACS3.Signal.BedGraph' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/BedGraph.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/BedGraph.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/BedGraph.o -L/opt/pkg/lib -lm -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/BedGraph.so building 'MACS3.Signal.ScoreTrack' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/ScoreTrack.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/ScoreTrack.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/ScoreTrack.o -L/opt/pkg/lib -lm -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/ScoreTrack.so building 'MACS3.Signal.CallPeakUnit' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/CallPeakUnit.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/CallPeakUnit.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/CallPeakUnit.o -L/opt/pkg/lib -lm -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/CallPeakUnit.so building 'MACS3.Signal.VariantStat' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/VariantStat.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/VariantStat.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/VariantStat.o -L/opt/pkg/lib -lm -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/VariantStat.so building 'MACS3.Signal.ReadAlignment' extension gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I/opt/pkg/include/python3.11 -c MACS3/Signal/ReadAlignment.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/ReadAlignment.o -w -O3 -g0 gcc -shared -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -lresolv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -L/opt/pkg/lib -Wl,-R/opt/pkg/lib -lintl -liconv -L/usr/lib/amd64 -Wl,-R/usr/lib/amd64 -Wl,-R/opt/pkg/lib -lintl -liconv -L/opt/pkg/lib -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/ReadAlignment.o -L/opt/pkg/lib -lm -o build/lib.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/ReadAlignment.so building 'MACS3.Signal.RACollection' extension creating build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/fermi-lite gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/opt/pkg/include/python3.11 -c MACS3/Signal/RACollection.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/RACollection.o -w -O3 -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/opt/pkg/include/python3.11 -c MACS3/Signal/swalign.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/Signal/swalign.o -w -O3 -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/opt/pkg/include/python3.11 -c MACS3/fermi-lite/bfc.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/fermi-lite/bfc.o -w -O3 -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/opt/pkg/include/python3.11 -c MACS3/fermi-lite/bseq.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/fermi-lite/bseq.o -w -O3 -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/opt/pkg/include/python3.11 -c MACS3/fermi-lite/bubble.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/fermi-lite/bubble.o -w -O3 -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/opt/pkg/include/python3.11 -c MACS3/fermi-lite/htab.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/fermi-lite/htab.o -w -O3 -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/opt/pkg/include/python3.11 -c MACS3/fermi-lite/ksw.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/fermi-lite/ksw.o -w -O3 -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP gcc -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -I/usr/include -I/opt/pkg/include/python3.11 -I/opt/pkg/include -fPIC -IMACS3/Signal -I/opt/pkg/lib/python3.11/site-packages/numpy/_core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/opt/pkg/include/python3.11 -c MACS3/fermi-lite/kthread.c -o build/temp.solaris-2.11-i86pc.64bit-cpython-311/MACS3/fermi-lite/kthread.o -w -O3 -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP MACS3/fermi-lite/kthread.c: In function 'kt_for': MACS3/fermi-lite/kthread.c:55:38: error: implicit declaration of function 'alloca' [-Wimplicit-function-declaration] 55 | t.w = (ktf_worker_t*)alloca(n_threads * sizeof(ktf_worker_t)); | ^~~~~~ MACS3/fermi-lite/kthread.c:55:38: warning: incompatible implicit declaration of built-in function 'alloca' [-Wbuiltin-declaration-mismatch] error: command '/home/pbulk/build/biology/py-macs3/work/.cwrapper/bin/gcc' failed with exit code 1 ERROR Backend subprocess exited when trying to invoke build_wheel *** Error code 1 Stop. bmake[1]: stopped making "all" in /data/jenkins/workspace/pkgsrc-upstream-trunk/biology/py-macs3 *** Error code 1 Stop. bmake: stopped making "all" in /data/jenkins/workspace/pkgsrc-upstream-trunk/biology/py-macs3