* Package: sci-physics/lammps-20220217:0 * Repository: gentoo * Maintainer: nicolasbock@gentoo.org sci-physics@gentoo.org * USE: abi_x86_64 amd64 elibc_musl kernel_linux python_targets_python3_10 python_targets_python3_9 userland_GNU * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox * Please clean PYTHON_COMPAT of obsolete implementations: @@@@@ PLEASE PAY ATTENTION HERE!!! @@@@@ This information may help you to understand if this is a duplicate or if this bug exists after you pushed a fix; This ebuild was merged at the following commit: https://github.com/gentoo-mirror/gentoo/commit/b18e6e9ea969bcba86dcad23acf6a10da2cb8d04 (Tue Feb 28 15:02:11 UTC 2023) @@@@@ END @@@@@ ################## # emerge --info: # ################## Portage 3.0.45.1 (python 3.11.2-final-0, default/linux/amd64/17.0/musl/hardened, gcc-12, musl-1.2.3-r7, 5.15.85-gentoo-dist x86_64) ================================================================= System uname: Linux-5.15.85-gentoo-dist-x86_64-AMD_EPYC_7513_32-Core_Processor-with-libc KiB Mem: 263532996 total, 153876240 free KiB Swap: 0 total, 0 free Timestamp of repository gentoo: Tue, 28 Feb 2023 15:02:10 +0000 sh bash 5.2_p15-r2 ld GNU ld (Gentoo 2.40 p2) 2.40.0 app-misc/pax-utils: 1.3.7::gentoo app-shells/bash: 5.2_p15-r2::gentoo dev-lang/perl: 5.36.0-r2::gentoo dev-lang/python: 3.9.16_p2::gentoo, 3.10.10_p2::gentoo, 3.11.2_p1::gentoo dev-util/cmake: 3.25.2::gentoo dev-util/meson: 1.0.0::gentoo sys-apps/baselayout: 2.13-r1::gentoo sys-apps/openrc: 0.46::gentoo sys-apps/sandbox: 2.30-r1::gentoo sys-devel/autoconf: 2.71-r5::gentoo sys-devel/automake: 1.16.5::gentoo sys-devel/binutils: 2.40-r2::gentoo sys-devel/binutils-config: 5.5::gentoo sys-devel/clang: 16.0.0_rc3::gentoo sys-devel/gcc: 12.2.1_p20230121-r1::gentoo sys-devel/gcc-config: 2.10::gentoo sys-devel/libtool: 2.4.7-r1::gentoo sys-devel/llvm: 16.0.0_rc3::gentoo sys-devel/make: 4.4.1::gentoo sys-kernel/linux-headers: 6.2::gentoo (virtual/os-headers) sys-libs/musl: 1.2.3-r7::gentoo Repositories: gentoo location: /usr/portage sync-type: rsync sync-uri: rsync://rsync.gentoo.org/gentoo-portage priority: -1000 volatile: True sync-rsync-verify-max-age: 24 sync-rsync-extra-opts: sync-rsync-verify-jobs: 1 sync-rsync-verify-metamanifest: yes ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="* GPL-2" CBUILD="x86_64-gentoo-linux-musl" CC="clang" CFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" CHOST="x86_64-gentoo-linux-musl" CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo" CXX="clang++" CXXFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" DISTDIR="/var/tmp/portage/sci-physics/lammps-20220217/distdir" EMERGE_DEFAULT_OPTS="--with-bdeps=y -1 -k -b" ENV_UNSET="CARGO_HOME DBUS_SESSION_BUS_ADDRESS DISPLAY GDK_PIXBUF_MODULE_FILE GOBIN GOPATH PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR XDG_STATE_HOME" FCFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance buildpkg buildpkg-live config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync network-sandbox news parallel-fetch pid-sandbox preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms sign split-log strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" GENTOO_MIRRORS="http://mirror.leaseweb.com/gentoo/ http://ftp.snt.utwente.nl/pub/os/linux/gentoo/ http://ftp.belnet.be/pub/rsync.gentoo.org/gentoo/ http://distfiles.gentoo.org" INSTALL_MASK="charset.alias /usr/share/locale/locale.alias" LANG="C.UTF8" LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0" LEX="flex" MAKEOPTS="-j16" PKGDIR="/root/tbci/binpkg" PORTAGE_CONFIGROOT="/" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git" PORTAGE_TMPDIR="/var/tmp" SHELL="/bin/bash" USE="acl amd64 bzip2 cet cli crypt debug dri elogind fortran hardened iconv ipv6 jumbo-build libglvnd libtirpc native-symlinks ncurses nls nptl openmp pam pcre pie readline seccomp split-usr ssl ssp test-rust unicode xattr xtpax zlib" ABI_X86="64" ELIBC="musl" KERNEL="linux" PYTHON_TARGETS="python3_9 python3_10" USERLAND="GNU" Unset: ADDR2LINE, AR, ARFLAGS, AS, ASFLAGS, CCLD, CONFIG_SHELL, CPP, CPPFLAGS, CTARGET, CXXFILT, ELFEDIT, EXTRA_ECONF, F77FLAGS, FC, GCOV, GPROF, LC_ALL, LD, LFLAGS, LIBTOOL, LINGUAS, MAKE, MAKEFLAGS, NM, OBJCOPY, OBJDUMP, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, RANLIB, READELF, RUSTFLAGS, SIZE, STRINGS, STRIP, YACC, YFLAGS ############################## # emerge history (qlop -mv): # ############################## 2023-02-28T15:12:03 >>> virtual/fortran-0-r1 2023-02-28T15:12:03 >>> dev-cpp/eigen-3.4.0-r1 2023-02-28T15:12:04 >>> sci-libs/fftw-3.3.10 2023-02-28T15:12:04 >>> sci-libs/lapack-3.11 2023-02-28T15:12:05 >>> sci-libs/hdf5-1.12.2-r5 2023-02-28T15:12:14 >>> virtual/blas-3.8 2023-02-28T15:12:14 >>> virtual/lapack-3.10 2023-02-28T15:12:15 >>> sci-libs/netcdf-4.9.0 2023-02-28T15:12:03 >>> sci-libs/voro++-0.4.6-r1 ####################################### # installed packages (qlist -ICvUSS): # ####################################### acct-group/audio-0-r1:0 acct-group/cdrom-0-r1:0 acct-group/dialout-0-r1:0 acct-group/disk-0-r1:0 acct-group/floppy-0:0 acct-group/input-0-r1:0 acct-group/kmem-0-r1:0 acct-group/kvm-0-r1:0 acct-group/lp-0-r1:0 acct-group/man-0-r1:0 acct-group/messagebus-0-r1:0 acct-group/portage-0:0 acct-group/render-0-r1:0 acct-group/root-0:0 acct-group/sgx-0:0 acct-group/sshd-0-r1:0 acct-group/tape-0-r1:0 acct-group/tty-0-r1:0 acct-group/usb-0-r1:0 acct-group/video-0-r1:0 acct-user/man-1-r1:0 acct-user/messagebus-0-r1:0 acct-user/portage-0:0 acct-user/sshd-0-r1:0 app-admin/eselect-1.4.21:0 -doc -emacs -vim-syntax app-admin/perl-cleaner-2.30-r1:0 -pkgcore app-alternatives/awk-4:0 -busybox gawk -mawk -nawk split-usr app-alternatives/bzip2-1:0 -lbzip2 -pbzip2 reference split-usr app-alternatives/gzip-0:0 -pigz reference split-usr app-alternatives/lex-0-r1:0 flex -reflex app-alternatives/sh-0:0 bash -busybox -dash -ksh -lksh -mksh app-alternatives/tar-0:0 gnu -libarchive split-usr app-alternatives/yacc-1-r2:0 bison -byacc -reference 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-selinux smartcard ssl -test tofu -tools -tpm -usb -user-socket -verify-sig -wks-server app-crypt/gpgme-1.18.0-r2:1/11.6.15.1 -common-lisp cxx -python python_targets_python3_10 python_targets_python3_11 python_targets_python3_9 -qt5 -static-libs -test -verify-sig app-crypt/libb2-0.98.1-r3:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -native-cflags openmp -static-libs app-crypt/libmd-1.0.4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 app-crypt/pinentry-1.2.1-r1:0 -caps -efl -emacs -gnome-keyring -gtk ncurses -qt5 -verify-sig app-crypt/rhash-1.4.3:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 debug nls ssl -static-libs app-editors/nano-7.2:0 -debug -justify -magic -minimal ncurses nls spell -static unicode app-eselect/eselect-fontconfig-20220403:0 app-eselect/eselect-iptables-20220320:0 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-cxx large -static-libs threads dev-libs/elfutils-0.188:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 bzip2 -lzma nls -static-libs -test utils -valgrind -verify-sig -zstd dev-libs/expat-2.5.0:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -examples -static-libs unicode dev-libs/glib-2.74.6:2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -dbus debug elf -gtk-doc mime -selinux -static-libs -sysprof -systemtap -test -utils xattr dev-libs/gmp-6.2.1-r5:0/10.4 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 asm cpudetection cxx -doc -pic -static-libs dev-libs/gobject-introspection-1.74.0:0 -doctool -gtk-doc python_single_target_python3_10 -python_single_target_python3_11 -python_single_target_python3_9 -test dev-libs/gobject-introspection-common-1.74.0:0 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-doc x11-libs/libXt-1.2.1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc -test x11-libs/pixman-0.42.2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cpu_flags_arm_iwmmxt -cpu_flags_arm_iwmmxt2 -cpu_flags_arm_neon -cpu_flags_ppc_altivec cpu_flags_x86_mmxext cpu_flags_x86_sse2 cpu_flags_x86_ssse3 -loongson2f -static-libs -test x11-libs/xtrans-1.4.0:0 -doc x11-misc/compose-tables-1.8.4:0 x11-misc/shared-mime-info-2.2:0 -test x11-misc/xdg-utils-1.1.3_p20210805-r1:0 -dbus -doc -gnome ####################### # build.log # ####################### * python3_8 * Using following Fortran compiler: * F77: x86_64-gentoo-linux-musl-gfortran * FC: x86_64-gentoo-linux-musl-gfortran >>> Unpacking source... >>> Unpacking lammps-17Feb2022.tar.gz to /var/tmp/portage/sci-physics/lammps-20220217/work >>> Source unpacked in /var/tmp/portage/sci-physics/lammps-20220217/work >>> Preparing source in /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake ... * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build" * Hardcoded definition(s) removed in CMakeLists.txt: * set(CMAKE_INSTALL_PREFIX "$ENV{USERPROFILE}/LAMMPS" CACHE PATH "Default i * set(CMAKE_INSTALL_PREFIX "$ENV{HOME}/.local" CACHE PATH "Default install * set(CMAKE_BUILD_TYPE RelWithDebInfo CACHE STRING "Choose the type of build, >>> Source prepared. >>> Configuring source in /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake ... * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build" cmake -C /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build/gentoo_common_config.cmake -G Unix Makefiles -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_INSTALL_SYSCONFDIR=/etc -DBUILD_SHARED_LIBS=ON -DBUILD_MPI=no -DBUILD_DOC=OFF -DENABLE_TESTING=no -DPKG_ASPHERE=ON -DPKG_BODY=ON -DPKG_CLASS2=ON -DPKG_COLLOID=ON -DPKG_COMPRESS=ON -DPKG_CORESHELL=ON -DPKG_DIPOLE=ON -DPKG_GRANULAR=ON -DPKG_KSPACE=ON -DFFT=FFTW3 -DPKG_KOKKOS=OFF -DPKG_MANYBODY=ON -DPKG_MC=ON -DPKG_MEAM=ON -DPKG_MISC=ON -DPKG_MOLECULE=ON -DPKG_PERI=ON -DPKG_QEQ=ON -DPKG_REPLICA=ON -DPKG_RIGID=ON -DPKG_SHOCK=ON -DPKG_SRD=ON -DPKG_PYTHON=no -DPKG_MPIIO=no -DPKG_VORONOI=ON -DPKG_GPU=OFF -DCMAKE_BUILD_TYPE=RelWithDebInfo -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build/gentoo_toolchain.cmake /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake loading initial cache file /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build/gentoo_common_config.cmake -- The CXX compiler identification is Clang 16.0.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/lib/llvm/16/bin/clang++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found Git: /usr/bin/git (found version "2.39.2") -- Running check for auto-generated files from make-based build system -- Checking for module 'mpi-cxx' -- Package 'mpi-cxx', required by 'virtual:world', not found -- Looking for C++ include omp.h -- Looking for C++ include omp.h - found -- Found OpenMP_CXX: -fopenmp=libomp (found version "5.0") -- Found OpenMP: TRUE (found version "5.0") -- Found PNG: /usr/lib/libpng.so (found version "1.6.39") -- Found ZLIB: /usr/lib/libz.so (found version "1.2.13") -- Found GZIP: /bin/gzip -- Could NOT find FFMPEG (missing: FFMPEG_EXECUTABLE) -- Found PkgConfig: /usr/bin/x86_64-gentoo-linux-musl-pkg-config (found version "1.8.1") -- Checking for module 'fftw3' -- Found fftw3, version 3.3.10 -- Found FFTW3: /usr/lib/libfftw3.so -- Found VORO: /usr/lib/libvoro++.so -- Checking for module 'libzstd>=1.4' -- Found libzstd, version 1.5.4 -- Looking for C++ include cmath -- Looking for C++ include cmath - found -- Generating style headers... -- Generating package headers... -- Generating lmpinstalledpkgs.h... -- Found Python: /usr/bin/python3.11 (found version "3.11.2") found components: Interpreter -- Found ClangFormat: /usr/lib/llvm/16/bin/clang-format (found suitable version "16.0.0", minimum required is "8.0") -- The following tools and libraries have been found and configured: * Git * OpenMP * PNG * FFTW3 * VORO * ZLIB * Python * ClangFormat (required version >= 8.0) -- <<< Build configuration >>> Operating System: Linux Gentoo 2.13 Build type: RelWithDebInfo Install path: /usr Generator: Unix Makefiles using /usr/bin/gmake -- Enabled packages: ASPHERE;BODY;CLASS2;COLLOID;COMPRESS;CORESHELL;DIPOLE;GRANULAR;KSPACE;MANYBODY;MC;MEAM;MISC;MOLECULE;PERI;QEQ;REPLICA;RIGID;SHOCK;SRD;VORONOI -- <<< Compilers and Flags: >>> -- C++ Compiler: /usr/lib/llvm/16/bin/clang++ Type: Clang Version: 16.0.0 C++ Flags: -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 Defines: LAMMPS_SMALLBIG;LAMMPS_MEMALIGN=64;LAMMPS_OMP_COMPAT=4;LAMMPS_PNG;LAMMPS_GZIP;FFT_FFTW3;FFT_FFTW_THREADS;LAMMPS_ZSTD -- <<< Linker flags: >>> -- Executable name: lmp -- Executable linker flags: -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -- Shared library flags: -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -- <<< FFT settings >>> -- Primary FFT lib: FFTW3 -- Using double precision FFTs -- Using threaded FFTs -- <<< Gentoo configuration >>> Build type RelWithDebInfo Install path /usr Compiler flags: C C++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 Linker flags: Executable -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 Module -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 Shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -- Configuring done -- Generating done -- Build files have been written to: /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build >>> Source configured. >>> Compiling source in /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake ... * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build" make -j16 VERBOSE=1 /usr/bin/cmake -S/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake -B/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build --check-build-system CMakeFiles/Makefile.cmake 0 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-I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/REPLICA -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/RIGID -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SHOCK -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SRD -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/VORONOI -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/CORESHELL -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build/styles -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/STUBS -isystem /usr/include/voro++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -fopenmp=libomp -std=c++11 -MD -MT CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/memory.cpp.o -MF CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/memory.cpp.o.d -o CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/memory.cpp.o -c /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/memory.cpp [ 35%] Building CXX object CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min.cpp.o /usr/lib/llvm/16/bin/clang++ -DFFT_FFTW3 -DFFT_FFTW_THREADS -DLAMMPS_GZIP -DLAMMPS_MEMALIGN=64 -DLAMMPS_OMP_COMPAT=4 -DLAMMPS_PNG -DLAMMPS_SMALLBIG -DLAMMPS_ZSTD -Dlammps_EXPORTS -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/ASPHERE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/BODY -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/CLASS2 -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/COLLOID -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/COMPRESS -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/DIPOLE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/GRANULAR -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/KSPACE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MANYBODY -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MC -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MEAM -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MISC -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MOLECULE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/PERI -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/QEQ -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/REPLICA -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/RIGID -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SHOCK -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SRD -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/VORONOI -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/CORESHELL -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build/styles -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/STUBS -isystem /usr/include/voro++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -fopenmp=libomp -std=c++11 -MD -MT CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min.cpp.o -MF CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min.cpp.o.d -o CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min.cpp.o -c /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min.cpp /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/info.cpp:1329:27: error: function-like macro '__GLIBC_PREREQ' is not defined #if defined(__GLIBC__) && __GLIBC_PREREQ(2, 33) ^ /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/info.cpp:1333:21: error: variable has incomplete type 'struct mallinfo' struct mallinfo mi; ^ /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/info.cpp:1333:12: note: forward declaration of 'mallinfo' struct mallinfo mi; ^ /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/info.cpp:1334:10: error: invalid use of incomplete type 'mallinfo' mi = mallinfo(); ^~~~~~~~~~ /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/info.cpp:1333:12: note: forward declaration of 'mallinfo' struct mallinfo mi; ^ [ 35%] Building CXX object CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_cg.cpp.o /usr/lib/llvm/16/bin/clang++ -DFFT_FFTW3 -DFFT_FFTW_THREADS -DLAMMPS_GZIP -DLAMMPS_MEMALIGN=64 -DLAMMPS_OMP_COMPAT=4 -DLAMMPS_PNG -DLAMMPS_SMALLBIG -DLAMMPS_ZSTD -Dlammps_EXPORTS -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/ASPHERE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/BODY -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/CLASS2 -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/COLLOID -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/COMPRESS -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/DIPOLE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/GRANULAR -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/KSPACE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MANYBODY -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MC -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MEAM -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MISC -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MOLECULE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/PERI -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/QEQ -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/REPLICA -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/RIGID -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SHOCK -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SRD -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/VORONOI -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/CORESHELL -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build/styles -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/STUBS -isystem /usr/include/voro++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -fopenmp=libomp -std=c++11 -MD -MT CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_cg.cpp.o -MF CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_cg.cpp.o.d -o CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_cg.cpp.o -c /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_cg.cpp [ 35%] Building CXX object CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire.cpp.o /usr/lib/llvm/16/bin/clang++ -DFFT_FFTW3 -DFFT_FFTW_THREADS -DLAMMPS_GZIP -DLAMMPS_MEMALIGN=64 -DLAMMPS_OMP_COMPAT=4 -DLAMMPS_PNG -DLAMMPS_SMALLBIG -DLAMMPS_ZSTD -Dlammps_EXPORTS -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/ASPHERE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/BODY -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/CLASS2 -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/COLLOID -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/COMPRESS -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/DIPOLE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/GRANULAR -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/KSPACE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MANYBODY -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MC -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MEAM -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MISC -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MOLECULE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/PERI -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/QEQ -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/REPLICA -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/RIGID -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SHOCK -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SRD -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/VORONOI -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/CORESHELL -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build/styles -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/STUBS -isystem /usr/include/voro++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -fopenmp=libomp -std=c++11 -MD -MT CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire.cpp.o -MF CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire.cpp.o.d -o CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire.cpp.o -c /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire.cpp [ 35%] Building CXX object CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire_old.cpp.o /usr/lib/llvm/16/bin/clang++ -DFFT_FFTW3 -DFFT_FFTW_THREADS -DLAMMPS_GZIP -DLAMMPS_MEMALIGN=64 -DLAMMPS_OMP_COMPAT=4 -DLAMMPS_PNG -DLAMMPS_SMALLBIG -DLAMMPS_ZSTD -Dlammps_EXPORTS -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/ASPHERE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/BODY -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/CLASS2 -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/COLLOID -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/COMPRESS -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/DIPOLE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/GRANULAR -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/KSPACE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MANYBODY -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MC -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MEAM -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MISC -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/MOLECULE -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/PERI -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/QEQ -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/REPLICA -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/RIGID -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SHOCK -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/SRD -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/VORONOI -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/CORESHELL -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/cmake_build/styles -I/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/STUBS -isystem /usr/include/voro++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -fopenmp=libomp -std=c++11 -MD -MT CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire_old.cpp.o -MF CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire_old.cpp.o.d -o CMakeFiles/lammps.dir/var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire_old.cpp.o -c /var/tmp/portage/sci-physics/lammps-20220217/work/lammps-17Feb2022/src/min_fire_old.cpp [ 35%] Building CXX object 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