[package - 113armv6-quarterly][biology/canu] Failed for canu-2.0 in build
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Thu Apr 9 19:21:58 UTC 2020
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 at FreeBSD.org
Last committer: jwb at FreeBSD.org
Ident: $FreeBSD: branches/2020Q2/biology/canu/Makefile 528792 2020-03-20 18:14:23Z jwb $
Log URL: http://beefy15.nyi.freebsd.org/data/113armv6-quarterly/531165/logs/canu-2.0.log
Build URL: http://beefy15.nyi.freebsd.org/build.html?mastername=113armv6-quarterly&build=531165
Log:
=>> Building biology/canu
build started at Thu Apr 9 19:15:28 UTC 2020
port directory: /usr/ports/biology/canu
package name: canu-2.0
building for: FreeBSD 113armv6-quarterly-job-17 11.3-RELEASE-p5 FreeBSD 11.3-RELEASE-p5 1103000 arm
maintained by: jwb at FreeBSD.org
Makefile ident: $FreeBSD: branches/2020Q2/biology/canu/Makefile 528792 2020-03-20 18:14:23Z jwb $
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=======================<phase: check-sanity >============================
===> License GPLv2 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> canu-2.0 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.13.2.txz
[113armv6-quarterly-job-17] Installing pkg-1.13.2...
[113armv6-quarterly-job-17] Extracting pkg-1.13.2: .......... done
===> canu-2.0 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of canu-2.0
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by canu-2.0 for building
===========================================================================
=======================<phase: checksum >============================
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by canu-2.0 for building
=> SHA256 Checksum OK for marbl-canu-v2.0_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by canu-2.0 for building
===> Extracting for canu-2.0
=> SHA256 Checksum OK for marbl-canu-v2.0_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
<snip>
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:81:5: error: 'get_deleter' declared as a 'virtual' field
81 | virtual void * get_deleter( detail::sp_typeinfo const & )
| ^~~~~~~
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:81:20: error: expected ';' at end of member declaration
81 | virtual void * get_deleter( detail::sp_typeinfo const & )
| ^~~~~~~~~~~
| ;
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:81:52: error: expected ')' before 'const'
81 | virtual void * get_deleter( detail::sp_typeinfo const & )
| ~ ^~~~~~
| )
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:156:5: error: 'get_deleter' declared as a 'virtual' field
156 | virtual void * get_deleter( detail::sp_typeinfo const & ti )
| ^~~~~~~
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:156:20: error: expected ';' at end of member declaration
156 | virtual void * get_deleter( detail::sp_typeinfo const & ti )
| ^~~~~~~~~~~
| ;
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:156:52: error: expected ')' before 'const'
156 | virtual void * get_deleter( detail::sp_typeinfo const & ti )
| ~ ^~~~~~
| )
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:252:5: error: 'get_deleter' declared as a 'virtual' field
252 | virtual void * get_deleter( detail::sp_typeinfo const & ti )
| ^~~~~~~
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:252:20: error: expected ';' at end of member declaration
252 | virtual void * get_deleter( detail::sp_typeinfo const & ti )
| ^~~~~~~~~~~
| ;
utgcns/libboost/boost/smart_ptr/detail/sp_counted_impl.hpp:252:52: error: expected ')' before 'const'
252 | virtual void * get_deleter( detail::sp_typeinfo const & ti )
| ~ ^~~~~~
| )
In file included from utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:28,
from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:395:33: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
395 | explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
| ^~~~~~~~
In file included from /usr/local/lib/gcc9/include/c++/memory:80,
from utgcns/libboost/boost/unordered/unordered_set_fwd.hpp:14,
from utgcns/libboost/boost/unordered/unordered_set.hpp:17,
from utgcns/libboost/boost/unordered_set.hpp:17,
from utgcns/libboost/boost/graph/adjacency_list.hpp:21,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
/usr/local/lib/gcc9/include/c++/bits/unique_ptr.h:53:28: note: declared here
53 | template<typename> class auto_ptr;
| ^~~~~~~~
In file included from utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:28,
from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:518:12: error: expected ';' at end of member declaration
518 | void * get_deleter( sp_typeinfo const & ti ) const
| ^~~~~~~~~~~
| ;
utgcns/libboost/boost/smart_ptr/detail/shared_count.hpp:518:36: error: expected ')' before 'const'
518 | void * get_deleter( sp_typeinfo const & ti ) const
| ~ ^~~~~~
| )
In file included from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:242:65: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
242 | template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
| ^~~~~~~~
In file included from /usr/local/lib/gcc9/include/c++/memory:80,
from utgcns/libboost/boost/unordered/unordered_set_fwd.hpp:14,
from utgcns/libboost/boost/unordered/unordered_set.hpp:17,
from utgcns/libboost/boost/unordered_set.hpp:17,
from utgcns/libboost/boost/graph/adjacency_list.hpp:21,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
/usr/local/lib/gcc9/include/c++/bits/unique_ptr.h:53:28: note: declared here
53 | template<typename> class auto_ptr;
| ^~~~~~~~
In file included from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:441:31: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
441 | explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
| ^~~~~~~~
In file included from /usr/local/lib/gcc9/include/c++/memory:80,
from utgcns/libboost/boost/unordered/unordered_set_fwd.hpp:14,
from utgcns/libboost/boost/unordered/unordered_set.hpp:17,
from utgcns/libboost/boost/unordered_set.hpp:17,
from utgcns/libboost/boost/graph/adjacency_list.hpp:21,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
/usr/local/lib/gcc9/include/c++/bits/unique_ptr.h:53:28: note: declared here
53 | template<typename> class auto_ptr;
| ^~~~~~~~
In file included from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:454:22: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
454 | shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
| ^~~~~~~~
In file included from /usr/local/lib/gcc9/include/c++/memory:80,
from utgcns/libboost/boost/unordered/unordered_set_fwd.hpp:14,
from utgcns/libboost/boost/unordered/unordered_set.hpp:17,
from utgcns/libboost/boost/unordered_set.hpp:17,
from utgcns/libboost/boost/graph/adjacency_list.hpp:21,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
/usr/local/lib/gcc9/include/c++/bits/unique_ptr.h:53:28: note: declared here
53 | template<typename> class auto_ptr;
| ^~~~~~~~
In file included from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:520:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
520 | shared_ptr & operator=( std::auto_ptr<Y> & r )
| ^~~~~~~~
In file included from /usr/local/lib/gcc9/include/c++/memory:80,
from utgcns/libboost/boost/unordered/unordered_set_fwd.hpp:14,
from utgcns/libboost/boost/unordered/unordered_set.hpp:17,
from utgcns/libboost/boost/unordered_set.hpp:17,
from utgcns/libboost/boost/graph/adjacency_list.hpp:21,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
/usr/local/lib/gcc9/include/c++/bits/unique_ptr.h:53:28: note: declared here
53 | template<typename> class auto_ptr;
| ^~~~~~~~
In file included from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:529:34: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
529 | shared_ptr & operator=( std::auto_ptr<Y> && r )
| ^~~~~~~~
In file included from /usr/local/lib/gcc9/include/c++/memory:80,
from utgcns/libboost/boost/unordered/unordered_set_fwd.hpp:14,
from utgcns/libboost/boost/unordered/unordered_set.hpp:17,
from utgcns/libboost/boost/unordered_set.hpp:17,
from utgcns/libboost/boost/graph/adjacency_list.hpp:21,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
/usr/local/lib/gcc9/include/c++/bits/unique_ptr.h:53:28: note: declared here
53 | template<typename> class auto_ptr;
| ^~~~~~~~
In file included from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:695:12: error: expected ';' at end of member declaration
695 | void * _internal_get_deleter( boost::detail::sp_typeinfo const & ti ) const BOOST_NOEXCEPT
| ^~~~~~~~~~~~~~~~~~~~~
| ;
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:695:61: error: expected ')' before 'const'
695 | void * _internal_get_deleter( boost::detail::sp_typeinfo const & ti ) const BOOST_NOEXCEPT
| ~ ^~~~~~
| )
In file included from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp: In member function 'boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)':
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:531:38: warning: 'template<class> class std::auto_ptr' is deprecated [-Wdeprecated-declarations]
531 | this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
| ^~~~~~~~
In file included from /usr/local/lib/gcc9/include/c++/memory:80,
from utgcns/libboost/boost/unordered/unordered_set_fwd.hpp:14,
from utgcns/libboost/boost/unordered/unordered_set.hpp:17,
from utgcns/libboost/boost/unordered_set.hpp:17,
from utgcns/libboost/boost/graph/adjacency_list.hpp:21,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
/usr/local/lib/gcc9/include/c++/bits/unique_ptr.h:53:28: note: declared here
53 | template<typename> class auto_ptr;
| ^~~~~~~~
In file included from utgcns/libboost/boost/shared_ptr.hpp:17,
from utgcns/libboost/boost/property_map/vector_property_map.hpp:14,
from utgcns/libboost/boost/property_map/property_map.hpp:600,
from utgcns/libboost/boost/graph/adjacency_list.hpp:36,
from utgcns/libpbutgcns/AlnGraphBoost.C:71:
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp: In function 'D* boost::detail::basic_get_deleter(const boost::shared_ptr<U>&)':
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:887:71: error: expected primary-expression before ')' token
887 | return static_cast<D *>( p._internal_get_deleter(BOOST_SP_TYPEID(D)) );
| ^
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:887:54: error: there are no arguments to 'BOOST_SP_TYPEID' that depend on a template parameter, so a declaration of 'BOOST_SP_TYPEID' must be available [-fpermissive]
887 | return static_cast<D *>( p._internal_get_deleter(BOOST_SP_TYPEID(D)) );
| ^~~~~~~~~~~~~~~
utgcns/libboost/boost/smart_ptr/shared_ptr.hpp:887:54: note: (if you use '-fpermissive', G++ will accept your code, but allowing the use of an undeclared name is deprecated)
gmake[1]: *** [Makefile:716: /wrkdirs/usr/ports/biology/canu/work/canu-2.0/src/usr/local/FreeBSD-armv6/obj/lib/libcanu.a/utgcns/libpbutgcns/AlnGraphBoost.o] Error 1
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/canu/work/canu-2.0/src'
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/canu
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