[package - 140i386-quarterly][biology/py-macs3] Failed for py39-MACS3-3.0.1 in build
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Date: Sun, 19 May 2024 01:11:46 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: jwb@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/beefy19/data/140i386-quarterly/347f69f1d579/logs/py39-MACS3-3.0.1.log
Build URL: https://pkg-status.freebsd.org/beefy19/build.html?mastername=140i386-quarterly&build=347f69f1d579
Log:
=>> Building biology/py-macs3
build started at Sun May 19 01:10:03 UTC 2024
port directory: /usr/ports/biology/py-macs3
package name: py39-MACS3-3.0.1
building for: FreeBSD 140i386-quarterly-job-10 14.0-RELEASE-p6 FreeBSD 14.0-RELEASE-p6 i386
maintained by: jwb@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 1640 Apr 8 19:19 /usr/ports/biology/py-macs3/Makefile
Ports top last git commit: 347f69f1d
Ports top unclean checkout: no
Port dir last git commit: b3aa1ea86
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.1-30-g79e3edcd
Host OSVERSION: 1500018
Jail OSVERSION: 1400097
Job Id: 10
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PORT_FLAGS=
PKGENV=
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---End OPTIONS List---
--MAINTAINER--
jwb@FreeBSD.org
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PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-macs3/work-py39 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-macs3/work-py39 XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/py-macs3/work-py39/.cache HOME=/wrkdirs/usr/ports/biology/py-macs3/work-py39 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-macs3/work-py39/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/py-macs3/work-py39/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -fstack-protector-strong " LIBS="-L/usr/local/lib" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -
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--End PLIST_SUB--
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PYTHON_INCLUDEDIR=/usr/local/include/python3.9 PYTHON_LIBDIR=/usr/local/lib/python3.9 PYTHON_PLATFORM=freebsd14 PYTHON_SITELIBDIR=/usr/local/lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/py39-MACS3 DOCSDIR=/usr/local/share/doc/py39-MACS3 EXAMPLESDIR=/usr/local/share/examples/py39-MACS3 WWWDIR=/usr/local/www/py39-MACS3 ETCDIR=/usr/local/etc/py39-MACS3
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MACHINE=i386
MACHINE_ARCH=i386
ARCH=${MACHINE_ARCH}
#### ####
# XXX: We really need this but cannot use it while 'make checksum' does not
# try the next mirror on checksum failure. It currently retries the same
# failed mirror and then fails rather then trying another. It *does*
# try the next if the size is mismatched though.
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MAKE_JOBS_NUMBER=3
#### Misc Poudriere ####
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GID=0
UID=0
---End make.conf---
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cpu time (seconds, -t) unlimited
file size (512-blocks, -f) unlimited
data seg size (kbytes, -d) 524288
stack size (kbytes, -s) 65536
core file size (512-blocks, -c) unlimited
max memory size (kbytes, -m) unlimited
locked memory (kbytes, -l) unlimited
max user processes (-u) 89999
open files (-n) 8192
virtual mem size (kbytes, -v) unlimited
swap limit (kbytes, -w) unlimited
socket buffer size (bytes, -b) unlimited
pseudo-terminals (-p) unlimited
kqueues (-k) unlimited
umtx shared locks (-o) unlimited
--End resource limits--
=======================<phase: check-sanity >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License BSD3CLAUSE accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> py39-MACS3-3.0.1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.21.2.pkg
[140i386-quarterly-job-10] Installing pkg-1.21.2...
[140i386-quarterly-job-10] Extracting pkg-1.21.2: .......... done
===> py39-MACS3-3.0.1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of py39-MACS3-3.0.1
===========================================================================
=======================<phase: fetch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: fetch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by py39-MACS3-3.0.1 for building
===========================================================================
=======================<phase: checksum >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by py39-MACS3-3.0.1 for building
=> SHA256 Checksum OK for macs3-project-MACS-v3.0.1_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: extract >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by py39-MACS3-3.0.1 for building
===> Extracting for py39-MACS3-3.0.1
=> SHA256 Checksum OK for macs3-project-MACS-v3.0.1_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: patch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Patching for py39-MACS3-3.0.1
===> Applying FreeBSD patches for py39-MACS3-3.0.1 from /usr/ports/biology/py-macs3/files
===========================================================================
=======================<phase: build-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> py39-MACS3-3.0.1 depends on package: py39-wheel>0 - not found
===> Installing existing package /packages/All/py39-wheel-0.43.0.pkg
[140i386-quarterly-job-10] Installing py39-wheel-0.43.0...
[140i386-quarterly-job-10] `-- Installing python39-3.9.18_2...
[140i386-quarterly-job-10] | `-- Installing gettext-runtime-0.22.5...
[140i386-quarterly-job-10] | | `-- Installing indexinfo-0.3.1...
[140i386-quarterly-job-10] | | `-- Extracting indexinfo-0.3.1: .... done
[140i386-quarterly-job-10] | `-- Extracting gettext-runtime-0.22.5: .......... done
[140i386-quarterly-job-10] | `-- Installing libffi-3.4.4_1...
[140i386-quarterly-job-10] | `-- Extracting libffi-3.4.4_1: .......... done
[140i386-quarterly-job-10] | `-- Installing mpdecimal-4.0.0...
[140i386-quarterly-job-10] | `-- Extracting mpdecimal-4.0.0: .......... done
[140i386-quarterly-job-10] | `-- Installing readline-8.2.10...
[140i386-quarterly-job-10] | `-- Extracting readline-8.2.10: .......... done
[140i386-quarterly-job-10] `-- Extracting python39-3.9.18_2: .......... done
[140i386-quarterly-job-10] Extracting py39-wheel-0.43.0: .......... done
=====
Message from python39-3.9.18_2:
--
Note that some standard Python modules are provided as separate ports
<snip>
[140i386-quarterly-job-10] `-- Extracting py39-pyproject_hooks-1.0.0_2: .......... done
[140i386-quarterly-job-10] Extracting py39-build-1.2.1: .......... done
===> py39-MACS3-3.0.1 depends on package: py39-build>=0 - found
===> Returning to build of py39-MACS3-3.0.1
===> py39-MACS3-3.0.1 depends on package: py39-installer>=0 - not found
===> Installing existing package /packages/All/py39-installer-0.7.0.pkg
[140i386-quarterly-job-10] Installing py39-installer-0.7.0...
[140i386-quarterly-job-10] Extracting py39-installer-0.7.0: .......... done
===> py39-MACS3-3.0.1 depends on package: py39-installer>=0 - found
===> Returning to build of py39-MACS3-3.0.1
===========================================================================
=======================<phase: lib-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: configure >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Configuring for py39-MACS3-3.0.1
===========================================================================
=======================<phase: build >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Building for py39-MACS3-3.0.1
* Getting build dependencies for 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
running egg_info
creating MACS3.egg-info
writing MACS3.egg-info/PKG-INFO
writing dependency_links to MACS3.egg-info/dependency_links.txt
writing requirements to MACS3.egg-info/requires.txt
writing top-level names to MACS3.egg-info/top_level.txt
writing manifest file 'MACS3.egg-info/SOURCES.txt'
reading manifest file 'MACS3.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'make_docker_base.sh'
warning: no previously-included files matching '*.h' found under directory 'MACS3'
warning: no previously-included files matching '.ipynb_checkpoints/*' found anywhere in distribution
adding license file 'LICENSE'
writing manifest file 'MACS3.egg-info/SOURCES.txt'
* Building wheel...
running bdist_wheel
running build
running build_py
creating build
creating build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39
creating build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3
copying MACS3/__init__.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3
creating build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/IO
copying MACS3/IO/OutputWriter.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/IO
copying MACS3/IO/__init__.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/IO
creating build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal
copying MACS3/Signal/__init__.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal
creating build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/bdgcmp_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/callpeak_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/filterdup_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/__init__.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/diffpeak_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/bdgopt_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/bdgpeakcall_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/predictd_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/randsample_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/refinepeak_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/cmbreps_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/bdgbroadcall_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/bdgdiff_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/pileup_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/hmmratac_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
copying MACS3/Commands/callvar_cmd.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Commands
creating build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Utilities
copying MACS3/Utilities/OptValidator.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Utilities
copying MACS3/Utilities/Logger.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Utilities
copying MACS3/Utilities/Constants.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Utilities
copying MACS3/Utilities/__init__.py -> build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Utilities
running build_ext
building 'MACS3.Signal.HMMR_EM' extension
creating build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39
creating build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3
creating build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/HMMR_EM.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/HMMR_EM.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/HMMR_EM.o -L/usr/local/lib -lm -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/HMMR_EM.cpython-39.so
building 'MACS3.Signal.HMMR_Signal_Processing' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/HMMR_Signal_Processing.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/HMMR_Signal_Processing.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/HMMR_Signal_Processing.o -L/usr/local/lib -lm -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/HMMR_Signal_Processing.cpython-39.so
building 'MACS3.Signal.HMMR_HMM' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/HMMR_HMM.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/HMMR_HMM.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/HMMR_HMM.o -L/usr/local/lib -lm -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/HMMR_HMM.cpython-39.so
building 'MACS3.Signal.Prob' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/Prob.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/Prob.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/Prob.o -L/usr/local/lib -lm -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/Prob.cpython-39.so
building 'MACS3.Signal.Region' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/Region.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/Region.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/Region.o -L/usr/local/lib -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/Region.cpython-39.so
building 'MACS3.Signal.Pileup' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I./MACS3/Signal -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/Pileup.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/Pileup.o -w -Ofast -g0
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I./MACS3/Signal -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/cPosValCalculation.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/cPosValCalculation.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/Pileup.o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/cPosValCalculation.o -L/usr/local/lib -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/Pileup.cpython-39.so
building 'MACS3.Signal.PileupV2' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/PileupV2.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PileupV2.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PileupV2.o -L/usr/local/lib -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PileupV2.cpython-39.so
building 'MACS3.Signal.PeakModel' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/PeakModel.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PeakModel.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PeakModel.o -L/usr/local/lib -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PeakModel.cpython-39.so
building 'MACS3.Signal.PeakDetect' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/include/python3.9 -c MACS3/Signal/PeakDetect.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PeakDetect.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PeakDetect.o -L/usr/local/lib -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PeakDetect.cpython-39.so
building 'MACS3.Signal.SignalProcessing' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/SignalProcessing.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/SignalProcessing.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/SignalProcessing.o -L/usr/local/lib -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/SignalProcessing.cpython-39.so
building 'MACS3.Signal.FixWidthTrack' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/FixWidthTrack.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/FixWidthTrack.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/FixWidthTrack.o -L/usr/local/lib -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/FixWidthTrack.cpython-39.so
building 'MACS3.Signal.PairedEndTrack' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/PairedEndTrack.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PairedEndTrack.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PairedEndTrack.o -L/usr/local/lib -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/PairedEndTrack.cpython-39.so
building 'MACS3.Signal.BedGraph' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/BedGraph.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/BedGraph.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/BedGraph.o -L/usr/local/lib -lm -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/BedGraph.cpython-39.so
building 'MACS3.Signal.ScoreTrack' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/ScoreTrack.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/ScoreTrack.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/ScoreTrack.o -L/usr/local/lib -lm -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/ScoreTrack.cpython-39.so
building 'MACS3.Signal.CallPeakUnit' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/CallPeakUnit.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/CallPeakUnit.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/CallPeakUnit.o -L/usr/local/lib -lm -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/CallPeakUnit.cpython-39.so
building 'MACS3.Signal.VariantStat' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/VariantStat.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/VariantStat.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/VariantStat.o -L/usr/local/lib -lm -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/VariantStat.cpython-39.so
building 'MACS3.Signal.ReadAlignment' extension
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MACS3/Signal/ReadAlignment.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/ReadAlignment.o -w -Ofast -g0
cc -shared -L/usr/local/lib -fstack-protector-strong -fstack-protector-strong -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/ReadAlignment.o -L/usr/local/lib -lm -o build/lib.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/ReadAlignment.cpython-39.so
building 'MACS3.Signal.RACollection' extension
creating build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/fermi-lite
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -IMACS3/Signal -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/usr/local/include/python3.9 -c MACS3/Signal/RACollection.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/RACollection.o -w -Ofast -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -IMACS3/Signal -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/usr/local/include/python3.9 -c MACS3/Signal/swalign.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/Signal/swalign.o -w -Ofast -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -IMACS3/Signal -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/usr/local/include/python3.9 -c MACS3/fermi-lite/bfc.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/fermi-lite/bfc.o -w -Ofast -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -IMACS3/Signal -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/usr/local/include/python3.9 -c MACS3/fermi-lite/bseq.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/fermi-lite/bseq.o -w -Ofast -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -IMACS3/Signal -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/usr/local/include/python3.9 -c MACS3/fermi-lite/bubble.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/fermi-lite/bubble.o -w -Ofast -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -IMACS3/Signal -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/usr/local/include/python3.9 -c MACS3/fermi-lite/htab.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/fermi-lite/htab.o -w -Ofast -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP
cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -IMACS3/Signal -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I./ -I./MACS3/fermi-lite/ -I./MACS3/Signal/ -I/usr/local/include/python3.9 -c MACS3/fermi-lite/ksw.c -o build/temp.freebsd-14.0-RELEASE-p6-i386-cpython-39/MACS3/fermi-lite/ksw.o -w -Ofast -g0 -std=gnu99 -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -DSIMDE_ENABLE_OPENMP
In file included from MACS3/fermi-lite/ksw.c:31:
In file included from /usr/local/include/simde/x86/sse2.h:35:
In file included from /usr/local/include/simde/x86/sse.h:34:
/usr/local/include/simde/x86/../simde-f16.h:96:11: error: _Float16 is not supported on this target
typedef _Float16 simde_float16;
^
1 error generated.
error: command '/usr/bin/cc' failed with exit code 1
ERROR Backend subprocess exited when trying to invoke build_wheel
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/py-macs3