* Package: sci-chemistry/dssp-2.2.1-r2 * Repository: gentoo * Maintainer: sci-chemistry@gentoo.org * USE: abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox Unable to configure loopback interface: Operation not permitted >>> Unpacking source... >>> Unpacking dssp-2.2.1.tgz to /var/tmp/portage/sci-chemistry/dssp-2.2.1-r2/work >>> Source unpacked in /var/tmp/portage/sci-chemistry/dssp-2.2.1-r2/work Unable to configure loopback interface: Operation not permitted >>> Preparing source in /var/tmp/portage/sci-chemistry/dssp-2.2.1-r2/work/dssp-2.2.1 ... * Applying dssp-2.1.0-gentoo.patch ... [ ok ] * Applying dssp-2.2.1-boost-1.65-tr1-removal.patch ... [ ok ] >>> Source prepared. Unable to configure loopback interface: Operation not permitted >>> Configuring source in /var/tmp/portage/sci-chemistry/dssp-2.2.1-r2/work/dssp-2.2.1 ... >>> Source configured. Unable to configure loopback interface: Operation not permitted >>> Compiling source in /var/tmp/portage/sci-chemistry/dssp-2.2.1-r2/work/dssp-2.2.1 ... make -j4 compiling obj/mkdssp.o x86_64-pc-linux-gnu-g++ -I"/usr/include" -iquote src -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG -O2 -march=native -pipe -Wall -Wno-multichar -pthread -MD -c -o obj/mkdssp.o src/mkdssp.cpp compiling obj/dssp.o x86_64-pc-linux-gnu-g++ -I"/usr/include" -iquote src -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG -O2 -march=native -pipe -Wall -Wno-multichar -pthread -MD -c -o obj/dssp.o src/dssp.cpp compiling obj/primitives-3d.o x86_64-pc-linux-gnu-g++ -I"/usr/include" -iquote src -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG -O2 -march=native -pipe -Wall -Wno-multichar -pthread -MD -c -o obj/primitives-3d.o src/primitives-3d.cpp compiling obj/structure.o x86_64-pc-linux-gnu-g++ -I"/usr/include" -iquote src -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG -O2 -march=native -pipe -Wall -Wno-multichar -pthread -MD -c -o obj/structure.o src/structure.cpp In file included from /usr/include/boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from /usr/include/boost/smart_ptr/detail/yield_k.hpp:23, from /usr/include/boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, from /usr/include/boost/smart_ptr/detail/spinlock.hpp:42, from /usr/include/boost/smart_ptr/detail/spinlock_pool.hpp:25, from /usr/include/boost/smart_ptr/shared_ptr.hpp:29, from /usr/include/boost/shared_ptr.hpp:17, from /usr/include/boost/format/alt_sstream.hpp:22, from /usr/include/boost/format/internals.hpp:24, from /usr/include/boost/format.hpp:38, from src/dssp.cpp:15: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/boost/bind.hpp:30, from src/structure.cpp:14: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ compiling obj/utils.o x86_64-pc-linux-gnu-g++ -I"/usr/include" -iquote src -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG -O2 -march=native -pipe -Wall -Wno-multichar -pthread -MD -c -o obj/utils.o src/utils.cpp In file included from /usr/include/boost/bind.hpp:30, from src/utils.cpp:11: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ compiling obj/mas.o x86_64-pc-linux-gnu-g++ -I"/usr/include" -iquote src -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG -O2 -march=native -pipe -Wall -Wno-multichar -pthread -MD -c -o obj/mas.o src/mas.cpp compiling obj/iocif.o x86_64-pc-linux-gnu-g++ -I"/usr/include" -iquote src -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG -O2 -march=native -pipe -Wall -Wno-multichar -pthread -MD -c -o obj/iocif.o src/iocif.cpp linking mkdssp x86_64-pc-linux-gnu-g++ -Wl,-O1 -Wl,--as-needed -o mkdssp obj/mkdssp.o obj/dssp.o obj/primitives-3d.o obj/structure.o obj/utils.o obj/mas.o obj/iocif.o -L"/usr/lib64" -lboost_thread-mt -lboost_filesystem-mt -lboost_program_options-mt -lboost_iostreams-mt -lboost_system-mt -lz -lbz2 -pthread /usr/lib/gcc/x86_64-pc-linux-gnu/10.3.0/../../../../x86_64-pc-linux-gnu/bin/ld: cannot find -lboost_thread-mt /usr/lib/gcc/x86_64-pc-linux-gnu/10.3.0/../../../../x86_64-pc-linux-gnu/bin/ld: cannot find -lboost_filesystem-mt /usr/lib/gcc/x86_64-pc-linux-gnu/10.3.0/../../../../x86_64-pc-linux-gnu/bin/ld: cannot find -lboost_program_options-mt /usr/lib/gcc/x86_64-pc-linux-gnu/10.3.0/../../../../x86_64-pc-linux-gnu/bin/ld: cannot find -lboost_iostreams-mt /usr/lib/gcc/x86_64-pc-linux-gnu/10.3.0/../../../../x86_64-pc-linux-gnu/bin/ld: cannot find -lboost_system-mt collect2: error: ld returned 1 exit status make: *** [makefile:54: mkdssp] Error 1 * ERROR: sci-chemistry/dssp-2.2.1-r2::gentoo failed (compile phase): * emake failed * * If you need support, post the output of `emerge --info '=sci-chemistry/dssp-2.2.1-r2::gentoo'`, * the complete build log and the output of `emerge -pqv '=sci-chemistry/dssp-2.2.1-r2::gentoo'`. * The complete build log is located at '/var/tmp/portage/sci-chemistry/dssp-2.2.1-r2/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/dssp-2.2.1-r2/temp/environment'. * Working directory: '/var/tmp/portage/sci-chemistry/dssp-2.2.1-r2/work/dssp-2.2.1' * S: '/var/tmp/portage/sci-chemistry/dssp-2.2.1-r2/work/dssp-2.2.1'