sci-chemistry:autodock_vina-1.1.2:20150815-060622.log

sci-chemistry:autodock_vina-1.1.2:20150815-060622.log (text/plain), 6.67 KB, created by Toralf Förster on 2015-08-15 08:29:22 UTC

 * Package:    sci-chemistry/autodock_vina-1.1.2
 * Repository: gentoo
 * Maintainer: [e-mail] [e-mail]
 * USE:        abi_x86_64 amd64 elibc_glibc kernel_linux pie ssp userland_GNU
 * FEATURES:   preserve-libs sandbox userpriv usersandbox
>>> Unpacking source...
>>> Unpacking autodock_vina_1_1_2.tgz to /var/tmp/portage/sci-chemistry/autodock_vina-1.1.2/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/autodock_vina-1.1.2/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/autodock_vina-1.1.2/work/autodock_vina_1_1_2/build/linux/release ...
 * Applying 1.1.2-gentoo.patch ...
 [ ok ]
 * Applying autodock_vina-1.1.2-boost-filesystem.patch ...
 [ ok ]
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-chemistry/autodock_vina-1.1.2/work/autodock_vina_1_1_2/build/linux/release ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-chemistry/autodock_vina-1.1.2/work/autodock_vina_1_1_2/build/linux/release ...
make -j1 BASE=/usr/ GPP=x86_64-pc-linux-gnu-g++ C_OPTIONS=-DNDEBUG 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -I ../../../src/lib -o main.o -c ../../../src/main/main.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o cache.o -c ../../../src/lib/cache.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o coords.o -c ../../../src/lib/coords.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o current_weights.o -c ../../../src/lib/current_weights.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o everything.o -c ../../../src/lib/everything.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o grid.o -c ../../../src/lib/grid.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o szv_grid.o -c ../../../src/lib/szv_grid.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o manifold.o -c ../../../src/lib/manifold.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o model.o -c ../../../src/lib/model.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o monte_carlo.o -c ../../../src/lib/monte_carlo.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o mutate.o -c ../../../src/lib/mutate.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o my_pid.o -c ../../../src/lib/my_pid.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o naive_non_cache.o -c ../../../src/lib/naive_non_cache.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o non_cache.o -c ../../../src/lib/non_cache.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o parallel_mc.o -c ../../../src/lib/parallel_mc.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o parse_pdbqt.o -c ../../../src/lib/parse_pdbqt.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o pdb.o -c ../../../src/lib/pdb.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o quasi_newton.o -c ../../../src/lib/quasi_newton.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o quaternion.o -c ../../../src/lib/quaternion.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o random.o -c ../../../src/lib/random.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o ssd.o -c ../../../src/lib/ssd.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o terms.o -c ../../../src/lib/terms.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -march=native -O2 -pipe -DBOOST_FILESYSTEM_VERSION=3 -o weighted_terms.o -c ../../../src/lib/weighted_terms.cpp 
x86_64-pc-linux-gnu-g++ -pthread -ansi -Wno-long-long -DNDEBUG -I/usr//include -Wl,-O1 -Wl,--as-needed -L. -o vina main.o cache.o coords.o current_weights.o everything.o grid.o szv_grid.o manifold.o model.o monte_carlo.o mutate.o my_pid.o naive_non_cache.o non_cache.o parallel_mc.o parse_pdbqt.o pdb.o quasi_newton.o quaternion.o random.o ssd.o terms.o weighted_terms.o -lboost_system -lboost_thread -lboost_serialization -lboost_filesystem -lboost_program_options -lpthread
/usr/lib/gcc/x86_64-pc-linux-gnu/4.8.4/../../../../x86_64-pc-linux-gnu/bin/ld: cannot find -lboost_thread
collect2: error: ld returned 1 exit status
../../makefile_common:34: recipe for target 'vina' failed
make: *** [vina] Error 1
 * ERROR: sci-chemistry/autodock_vina-1.1.2::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/autodock_vina-1.1.2::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/autodock_vina-1.1.2::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-chemistry:autodock_vina-1.1.2:20150815-060622.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/autodock_vina-1.1.2/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/autodock_vina-1.1.2/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/autodock_vina-1.1.2/work/autodock_vina_1_1_2/build/linux/release'
 * S: '/var/tmp/portage/sci-chemistry/autodock_vina-1.1.2/work/autodock_vina_1_1_2/build/linux/release'