Public bug reported: In Ubuntu 14.04 one could build the source package autodock-vina by following these instructions:
https://help.ubuntu.com/community/UpdatingADeb In Ubuntu 15.10 he compilation fails with the following errors: $ debuild -us -uc -i -I dpkg-buildpackage -rfakeroot -D -us -uc -i -I dpkg-buildpackage: source package autodock-vina dpkg-buildpackage: source version 1.1.2-3build2 dpkg-buildpackage: source distribution wily dpkg-buildpackage: source changed by Dimitri John Ledkov <[email protected]> dpkg-source -i -I --before-build autodock-vina-1.1.2 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean dh clean dh_testdir dh_auto_clean debian/rules override_dh_clean make[1]: Entering directory '/home/administrator/src/autodock-vina-1.1.2' dh_clean rm -f build/linux/release/*.o build/linux/release/vina* make[1]: Leaving directory '/home/administrator/src/autodock-vina-1.1.2' dpkg-source -i -I -b autodock-vina-1.1.2 dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building autodock-vina using existing ./autodock-vina_1.1.2.orig.tar.gz dpkg-source: info: building autodock-vina in autodock-vina_1.1.2-3build2.debian.tar.xz dpkg-source: info: building autodock-vina in autodock-vina_1.1.2-3build2.dsc debian/rules build make: 'build' is up to date. fakeroot debian/rules binary dh binary dh_testdir dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/home/administrator/src/autodock-vina-1.1.2' /usr/bin/make BASE=/usr -C build/linux/release CLFAGS="-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto" CXXFLAGS="-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto" LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro --lto" make[2]: Entering directory '/home/administrator/src/autodock-vina-1.1.2/build/linux/release' g++ -pthread -ansi -Wno-long-long -O3 -DNDEBUG -I /usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto -I ../../../src/lib -o main.o -c ../../../src/main/main.cpp In file included from /usr/include/pthread.h:24:0, from /usr/include/x86_64-linux-gnu/c++/5/bits/gthr-default.h:35, from /usr/include/x86_64-linux-gnu/c++/5/bits/gthr.h:148, from /usr/include/c++/5/ext/atomicity.h:35, from /usr/include/c++/5/bits/ios_base.h:39, from /usr/include/c++/5/ios:42, from /usr/include/c++/5/ostream:38, from /usr/include/c++/5/iostream:39, from ../../../src/main/main.cpp:23: /usr/local/include/boost/thread/xtime.hpp:23:5: error: expected identifier before numeric constant TIME_UTC=1 ^ /usr/local/include/boost/thread/xtime.hpp:23:5: error: expected ‘}’ before numeric constant /usr/local/include/boost/thread/xtime.hpp:23:5: error: expected unqualified-id before numeric constant In file included from /usr/local/include/boost/thread/pthread/mutex.hpp:13:0, from /usr/local/include/boost/thread/mutex.hpp:16, from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, from /usr/local/include/boost/thread/thread.hpp:17, from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/xtime.hpp:46:14: error: expected type-specifier before ‘system_time’ operator system_time() const ^ In file included from /usr/local/include/boost/thread/pthread/mutex.hpp:13:0, from /usr/local/include/boost/thread/mutex.hpp:16, from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, from /usr/local/include/boost/thread/thread.hpp:17, from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/xtime.hpp: In function ‘int xtime_get(xtime*, int)’: /usr/local/include/boost/thread/xtime.hpp:73:40: error: ‘get_system_time’ was not declared in this scope *xtp=get_xtime(get_system_time()); ^ /usr/local/include/boost/thread/xtime.hpp:73:40: note: suggested alternative: In file included from /usr/local/include/boost/thread/locks.hpp:12:0, from /usr/local/include/boost/thread/pthread/mutex.hpp:11, from /usr/local/include/boost/thread/mutex.hpp:16, from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, from /usr/local/include/boost/thread/thread.hpp:17, from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/thread_time.hpp:18:24: note: ‘boost::get_system_time’ inline system_time get_system_time() ^ In file included from /usr/local/include/boost/thread/pthread/mutex.hpp:13:0, from /usr/local/include/boost/thread/mutex.hpp:16, from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, from /usr/local/include/boost/thread/thread.hpp:17, from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/xtime.hpp: At global scope: /usr/local/include/boost/thread/xtime.hpp:88:1: error: expected declaration before ‘}’ token } // namespace boost ^ ../../makefile_common:24: recipe for target 'main.o' failed make[2]: *** [main.o] Error 1 make[2]: Leaving directory '/home/administrator/src/autodock-vina-1.1.2/build/linux/release' debian/rules:17: recipe for target 'override_dh_auto_build' failed make[1]: *** [override_dh_auto_build] Error 2 make[1]: Leaving directory '/home/administrator/src/autodock-vina-1.1.2' debian/rules:14: recipe for target 'binary' failed make: *** [binary] Error 2 dpkg-buildpackage: error: fakeroot debian/rules binary gave error exit status 2 debuild: fatal error at line 1374: dpkg-buildpackage -rfakeroot -D -us -uc -i -I failed ** Affects: autodock-vina (Ubuntu) Importance: Undecided Status: New ** Tags: autodock-vina source ** Description changed: In Ubuntu 14.04 one could build the source package autodock-vina by - following this instructions: + following these instructions: https://help.ubuntu.com/community/UpdatingADeb In Ubuntu 15.10 The compilation fails with the following errors: $ debuild -us -uc -i -I - dpkg-buildpackage -rfakeroot -D -us -uc -i -I + dpkg-buildpackage -rfakeroot -D -us -uc -i -I dpkg-buildpackage: source package autodock-vina dpkg-buildpackage: source version 1.1.2-3build2 dpkg-buildpackage: source distribution wily dpkg-buildpackage: source changed by Dimitri John Ledkov <[email protected]> - dpkg-source -i -I --before-build autodock-vina-1.1.2 + dpkg-source -i -I --before-build autodock-vina-1.1.2 dpkg-buildpackage: host architecture amd64 - fakeroot debian/rules clean + fakeroot debian/rules clean dh clean - dh_testdir - dh_auto_clean - debian/rules override_dh_clean + dh_testdir + dh_auto_clean + debian/rules override_dh_clean make[1]: Entering directory '/home/administrator/src/autodock-vina-1.1.2' dh_clean rm -f build/linux/release/*.o build/linux/release/vina* make[1]: Leaving directory '/home/administrator/src/autodock-vina-1.1.2' - dpkg-source -i -I -b autodock-vina-1.1.2 + dpkg-source -i -I -b autodock-vina-1.1.2 dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building autodock-vina using existing ./autodock-vina_1.1.2.orig.tar.gz dpkg-source: info: building autodock-vina in autodock-vina_1.1.2-3build2.debian.tar.xz dpkg-source: info: building autodock-vina in autodock-vina_1.1.2-3build2.dsc - debian/rules build + debian/rules build make: 'build' is up to date. - fakeroot debian/rules binary + fakeroot debian/rules binary dh binary - dh_testdir - dh_auto_configure - debian/rules override_dh_auto_build + dh_testdir + dh_auto_configure + debian/rules override_dh_auto_build make[1]: Entering directory '/home/administrator/src/autodock-vina-1.1.2' /usr/bin/make BASE=/usr -C build/linux/release CLFAGS="-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto" CXXFLAGS="-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto" LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro --lto" make[2]: Entering directory '/home/administrator/src/autodock-vina-1.1.2/build/linux/release' - g++ -pthread -ansi -Wno-long-long -O3 -DNDEBUG -I /usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto -I ../../../src/lib -o main.o -c ../../../src/main/main.cpp + g++ -pthread -ansi -Wno-long-long -O3 -DNDEBUG -I /usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto -I ../../../src/lib -o main.o -c ../../../src/main/main.cpp In file included from /usr/include/pthread.h:24:0, - from /usr/include/x86_64-linux-gnu/c++/5/bits/gthr-default.h:35, - from /usr/include/x86_64-linux-gnu/c++/5/bits/gthr.h:148, - from /usr/include/c++/5/ext/atomicity.h:35, - from /usr/include/c++/5/bits/ios_base.h:39, - from /usr/include/c++/5/ios:42, - from /usr/include/c++/5/ostream:38, - from /usr/include/c++/5/iostream:39, - from ../../../src/main/main.cpp:23: + from /usr/include/x86_64-linux-gnu/c++/5/bits/gthr-default.h:35, + from /usr/include/x86_64-linux-gnu/c++/5/bits/gthr.h:148, + from /usr/include/c++/5/ext/atomicity.h:35, + from /usr/include/c++/5/bits/ios_base.h:39, + from /usr/include/c++/5/ios:42, + from /usr/include/c++/5/ostream:38, + from /usr/include/c++/5/iostream:39, + from ../../../src/main/main.cpp:23: /usr/local/include/boost/thread/xtime.hpp:23:5: error: expected identifier before numeric constant - TIME_UTC=1 - ^ + TIME_UTC=1 + ^ /usr/local/include/boost/thread/xtime.hpp:23:5: error: expected ‘}’ before numeric constant /usr/local/include/boost/thread/xtime.hpp:23:5: error: expected unqualified-id before numeric constant In file included from /usr/local/include/boost/thread/pthread/mutex.hpp:13:0, - from /usr/local/include/boost/thread/mutex.hpp:16, - from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, - from /usr/local/include/boost/thread/thread.hpp:17, - from ../../../src/main/main.cpp:32: + from /usr/local/include/boost/thread/mutex.hpp:16, + from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, + from /usr/local/include/boost/thread/thread.hpp:17, + from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/xtime.hpp:46:14: error: expected type-specifier before ‘system_time’ - operator system_time() const - ^ + operator system_time() const + ^ In file included from /usr/local/include/boost/thread/pthread/mutex.hpp:13:0, - from /usr/local/include/boost/thread/mutex.hpp:16, - from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, - from /usr/local/include/boost/thread/thread.hpp:17, - from ../../../src/main/main.cpp:32: + from /usr/local/include/boost/thread/mutex.hpp:16, + from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, + from /usr/local/include/boost/thread/thread.hpp:17, + from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/xtime.hpp: In function ‘int xtime_get(xtime*, int)’: /usr/local/include/boost/thread/xtime.hpp:73:40: error: ‘get_system_time’ was not declared in this scope - *xtp=get_xtime(get_system_time()); - ^ + *xtp=get_xtime(get_system_time()); + ^ /usr/local/include/boost/thread/xtime.hpp:73:40: note: suggested alternative: In file included from /usr/local/include/boost/thread/locks.hpp:12:0, - from /usr/local/include/boost/thread/pthread/mutex.hpp:11, - from /usr/local/include/boost/thread/mutex.hpp:16, - from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, - from /usr/local/include/boost/thread/thread.hpp:17, - from ../../../src/main/main.cpp:32: + from /usr/local/include/boost/thread/pthread/mutex.hpp:11, + from /usr/local/include/boost/thread/mutex.hpp:16, + from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, + from /usr/local/include/boost/thread/thread.hpp:17, + from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/thread_time.hpp:18:24: note: ‘boost::get_system_time’ - inline system_time get_system_time() - ^ + inline system_time get_system_time() + ^ In file included from /usr/local/include/boost/thread/pthread/mutex.hpp:13:0, - from /usr/local/include/boost/thread/mutex.hpp:16, - from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, - from /usr/local/include/boost/thread/thread.hpp:17, - from ../../../src/main/main.cpp:32: + from /usr/local/include/boost/thread/mutex.hpp:16, + from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, + from /usr/local/include/boost/thread/thread.hpp:17, + from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/xtime.hpp: At global scope: /usr/local/include/boost/thread/xtime.hpp:88:1: error: expected declaration before ‘}’ token - } // namespace boost - ^ + } // namespace boost + ^ ../../makefile_common:24: recipe for target 'main.o' failed make[2]: *** [main.o] Error 1 make[2]: Leaving directory '/home/administrator/src/autodock-vina-1.1.2/build/linux/release' debian/rules:17: recipe for target 'override_dh_auto_build' failed make[1]: *** [override_dh_auto_build] Error 2 make[1]: Leaving directory '/home/administrator/src/autodock-vina-1.1.2' debian/rules:14: recipe for target 'binary' failed make: *** [binary] Error 2 dpkg-buildpackage: error: fakeroot debian/rules binary gave error exit status 2 debuild: fatal error at line 1374: dpkg-buildpackage -rfakeroot -D -us -uc -i -I failed ** Description changed: In Ubuntu 14.04 one could build the source package autodock-vina by following these instructions: https://help.ubuntu.com/community/UpdatingADeb - In Ubuntu 15.10 - - The compilation fails with the following errors: + In Ubuntu 15.10 he compilation fails with the following errors: $ debuild -us -uc -i -I dpkg-buildpackage -rfakeroot -D -us -uc -i -I dpkg-buildpackage: source package autodock-vina dpkg-buildpackage: source version 1.1.2-3build2 dpkg-buildpackage: source distribution wily dpkg-buildpackage: source changed by Dimitri John Ledkov <[email protected]> dpkg-source -i -I --before-build autodock-vina-1.1.2 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean dh clean dh_testdir dh_auto_clean debian/rules override_dh_clean make[1]: Entering directory '/home/administrator/src/autodock-vina-1.1.2' dh_clean rm -f build/linux/release/*.o build/linux/release/vina* make[1]: Leaving directory '/home/administrator/src/autodock-vina-1.1.2' dpkg-source -i -I -b autodock-vina-1.1.2 dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building autodock-vina using existing ./autodock-vina_1.1.2.orig.tar.gz dpkg-source: info: building autodock-vina in autodock-vina_1.1.2-3build2.debian.tar.xz dpkg-source: info: building autodock-vina in autodock-vina_1.1.2-3build2.dsc debian/rules build make: 'build' is up to date. fakeroot debian/rules binary dh binary dh_testdir dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/home/administrator/src/autodock-vina-1.1.2' /usr/bin/make BASE=/usr -C build/linux/release CLFAGS="-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto" CXXFLAGS="-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto" LDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro --lto" make[2]: Entering directory '/home/administrator/src/autodock-vina-1.1.2/build/linux/release' g++ -pthread -ansi -Wno-long-long -O3 -DNDEBUG -I /usr/include -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -fpermissive -DBOOST_FILESYSTEM_VERSION=3 --lto -I ../../../src/lib -o main.o -c ../../../src/main/main.cpp In file included from /usr/include/pthread.h:24:0, from /usr/include/x86_64-linux-gnu/c++/5/bits/gthr-default.h:35, from /usr/include/x86_64-linux-gnu/c++/5/bits/gthr.h:148, from /usr/include/c++/5/ext/atomicity.h:35, from /usr/include/c++/5/bits/ios_base.h:39, from /usr/include/c++/5/ios:42, from /usr/include/c++/5/ostream:38, from /usr/include/c++/5/iostream:39, from ../../../src/main/main.cpp:23: /usr/local/include/boost/thread/xtime.hpp:23:5: error: expected identifier before numeric constant TIME_UTC=1 ^ /usr/local/include/boost/thread/xtime.hpp:23:5: error: expected ‘}’ before numeric constant /usr/local/include/boost/thread/xtime.hpp:23:5: error: expected unqualified-id before numeric constant In file included from /usr/local/include/boost/thread/pthread/mutex.hpp:13:0, from /usr/local/include/boost/thread/mutex.hpp:16, from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, from /usr/local/include/boost/thread/thread.hpp:17, from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/xtime.hpp:46:14: error: expected type-specifier before ‘system_time’ operator system_time() const ^ In file included from /usr/local/include/boost/thread/pthread/mutex.hpp:13:0, from /usr/local/include/boost/thread/mutex.hpp:16, from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, from /usr/local/include/boost/thread/thread.hpp:17, from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/xtime.hpp: In function ‘int xtime_get(xtime*, int)’: /usr/local/include/boost/thread/xtime.hpp:73:40: error: ‘get_system_time’ was not declared in this scope *xtp=get_xtime(get_system_time()); ^ /usr/local/include/boost/thread/xtime.hpp:73:40: note: suggested alternative: In file included from /usr/local/include/boost/thread/locks.hpp:12:0, from /usr/local/include/boost/thread/pthread/mutex.hpp:11, from /usr/local/include/boost/thread/mutex.hpp:16, from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, from /usr/local/include/boost/thread/thread.hpp:17, from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/thread_time.hpp:18:24: note: ‘boost::get_system_time’ inline system_time get_system_time() ^ In file included from /usr/local/include/boost/thread/pthread/mutex.hpp:13:0, from /usr/local/include/boost/thread/mutex.hpp:16, from /usr/local/include/boost/thread/pthread/thread_data.hpp:12, from /usr/local/include/boost/thread/thread.hpp:17, from ../../../src/main/main.cpp:32: /usr/local/include/boost/thread/xtime.hpp: At global scope: /usr/local/include/boost/thread/xtime.hpp:88:1: error: expected declaration before ‘}’ token } // namespace boost ^ ../../makefile_common:24: recipe for target 'main.o' failed make[2]: *** [main.o] Error 1 make[2]: Leaving directory '/home/administrator/src/autodock-vina-1.1.2/build/linux/release' debian/rules:17: recipe for target 'override_dh_auto_build' failed make[1]: *** [override_dh_auto_build] Error 2 make[1]: Leaving directory '/home/administrator/src/autodock-vina-1.1.2' debian/rules:14: recipe for target 'binary' failed make: *** [binary] Error 2 dpkg-buildpackage: error: fakeroot debian/rules binary gave error exit status 2 debuild: fatal error at line 1374: dpkg-buildpackage -rfakeroot -D -us -uc -i -I failed -- You received this bug notification because you are a member of Ubuntu Bugs, which is subscribed to Ubuntu. https://bugs.launchpad.net/bugs/1549762 Title: Source package autodock-vina does not build in Ubuntu 15.10 To manage notifications about this bug go to: https://bugs.launchpad.net/ubuntu/+source/autodock-vina/+bug/1549762/+subscriptions -- ubuntu-bugs mailing list [email protected] https://lists.ubuntu.com/mailman/listinfo/ubuntu-bugs
