[package - 140releng-powerpc64le-quarterly][biology/megahit] Failed for megahit-1.2.9_1 in build
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Date: Fri, 02 Feb 2024 06:49:03 UTC
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@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/foul2/data/140releng-powerpc64le-quarterly/68593b1d8800/logs/megahit-1.2.9_1.log
Build URL: https://pkg-status.freebsd.org/foul2/build.html?mastername=140releng-powerpc64le-quarterly&build=68593b1d8800
Log:
=>> Building biology/megahit
build started at Fri Feb 2 06:46:24 UTC 2024
port directory: /usr/ports/biology/megahit
package name: megahit-1.2.9_1
building for: FreeBSD 140releng-powerpc64le-quarterly-job-24 14.0-RC3 FreeBSD 14.0-RC3 1400097 powerpc
maintained by: jwb@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 536 Jan 6 01:03 /usr/ports/biology/megahit/Makefile
Ports top last git commit: 68593b1d8
Ports top unclean checkout: no
Port dir last git commit: 756e18783
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.1
Host OSVERSION: 1500000
Jail OSVERSION: 1400097
Job Id: 24
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jwb@FreeBSD.org
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PYTHON="/usr/local/bin/python3.9" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/megahit/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/megahit/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/megahit/work/.cache HOME=/wrkdirs/usr/ports/biology/megahit/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/megahit/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/megahit/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh
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--End PLIST_SUB--
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#### ####
# XXX: We really need this but cannot use it while 'make checksum' does not
# try the next mirror on checksum failure. It currently retries the same
# failed mirror and then fails rather then trying another. It *does*
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umtx shared locks (-o) unlimited
--End resource limits--
=======================<phase: check-sanity >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> megahit-1.2.9_1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.20.9.pkg
[140releng-powerpc64le-quarterly-job-24] Installing pkg-1.20.9...
[140releng-powerpc64le-quarterly-job-24] Extracting pkg-1.20.9: .......... done
===> megahit-1.2.9_1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of megahit-1.2.9_1
===========================================================================
=======================<phase: fetch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: fetch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by megahit-1.2.9_1 for building
===========================================================================
=======================<phase: checksum >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by megahit-1.2.9_1 for building
=> SHA256 Checksum OK for voutcn-megahit-v1.2.9_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: extract >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by megahit-1.2.9_1 for building
===> Extracting for megahit-1.2.9_1
=> SHA256 Checksum OK for voutcn-megahit-v1.2.9_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: patch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Patching for megahit-1.2.9_1
===> Applying FreeBSD patches for megahit-1.2.9_1 from /usr/ports/biology/megahit/files
===========================================================================
=======================<phase: build-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> megahit-1.2.9_1 depends on file: /usr/local/bin/cmake - not found
===> Installing existing package /packages/All/cmake-core-3.28.1.pkg
[140releng-powerpc64le-quarterly-job-24] Installing cmake-core-3.28.1...
[140releng-powerpc64le-quarterly-job-24] `-- Installing expat-2.5.0...
[140releng-powerpc64le-quarterly-job-24] `-- Extracting expat-2.5.0: .......... done
[140releng-powerpc64le-quarterly-job-24] `-- Installing jsoncpp-1.9.5...
[140releng-powerpc64le-quarterly-job-24] `-- Extracting jsoncpp-1.9.5: .......... done
[140releng-powerpc64le-quarterly-job-24] `-- Installing libuv-1.47.0...
[140releng-powerpc64le-quarterly-job-24] `-- Extracting libuv-1.47.0: .......... done
[140releng-powerpc64le-quarterly-job-24] `-- Installing rhash-1.4.4...
[140releng-powerpc64le-quarterly-job-24] | `-- Installing gettext-runtime-0.22.3...
[140releng-powerpc64le-quarterly-job-24] | | `-- Installing indexinfo-0.3.1...
[140releng-powerpc64le-quarterly-job-24] | | `-- Extracting indexinfo-0.3.1: .... done
[140releng-powerpc64le-quarterly-job-24] | `-- Extracting gettext-runtime-0.22.3: .......... done
[140releng-powerpc64le-quarterly-job-24] `-- Extracting rhash-1.4.4: .......... done
[140releng-powerpc64le-quarterly-job-24] Extracting cmake-core-3.28.1: .......... done
===> megahit-1.2.9_1 depends on file: /usr/local/bin/cmake - found
===> Returning to build of megahit-1.2.9_1
===> megahit-1.2.9_1 depends on executable: ninja - not found
===> Installing existing package /packages/All/ninja-1.11.1,2.pkg
[140releng-powerpc64le-quarterly-job-24] Installing ninja-1.11.1,2...
[140releng-powerpc64le-quarterly-job-24] `-- Installing python39-3.9.18...
[140releng-powerpc64le-quarterly-job-24] | `-- Installing libffi-3.4.4...
[140releng-powerpc64le-quarterly-job-24] | `-- Extracting libffi-3.4.4: .......... done
[140releng-powerpc64le-quarterly-job-24] | `-- Installing mpdecimal-2.5.1...
[140releng-powerpc64le-quarterly-job-24] | `-- Extracting mpdecimal-2.5.1: .......... done
<snip>
ReadReadsAndProcess(opt, index);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:204:28: note: in instantiation of member function 'Runner<Kmer<1>>::Run' requested here
runners.emplace_back(new Runner<Kmer<1, uint64_t>>());
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:36:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:10:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap.h:51:
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:242:36: warning: builtin __has_trivial_destructor is deprecated; use __is_trivially_destructible instead [-Wdeprecated-builtins]
: std::integral_constant<bool, __has_trivial_destructor(T) &&
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:331:36: note: in instantiation of template class 'phmap::is_trivially_destructible<std::allocator<KmerPlus<Kmer<>, unsigned short>>>' requested here
is_trivially_destructible<T>::value>
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:1923:32: note: in instantiation of template class 'phmap::is_trivially_copy_constructible<std::allocator<KmerPlus<Kmer<>, unsigned short>>>' requested here
bool unused = phmap::is_trivially_copy_constructible<T>::value&&
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2158:45: note: in instantiation of default argument for 'optional_data<std::allocator<KmerPlus<Kmer<>, unsigned short>>>' required here
class optional : private optional_internal::optional_data<T>,
^~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2904:37: note: in instantiation of template class 'phmap::optional<std::allocator<KmerPlus<Kmer<>, unsigned short>>>' requested here
phmap::optional<allocator_type> alloc_;
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2913:28: note: in instantiation of template class 'phmap::container_internal::node_handle_base<phmap::container_internal::hash_policy_traits<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<>, unsigned short>>>, std::allocator<KmerPlus<Kmer<>, unsigned short>>>' requested here
class node_handle : public node_handle_base<PolicyTraits, Alloc>
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/kmer_collector.h:38:24: note: (skipping 1 context in backtrace; use -ftemplate-backtrace-limit=0 to see all)
collection_.insert({kmer, mul});
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:206:16: note: in instantiation of member function 'KmerCollector<Kmer<>>::Insert' requested here
out->Insert(new_kmer < new_rkmer ? new_kmer : new_rkmer,
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:136:32: note: in instantiation of function template specialization 'ContigFlankIndex<Kmer<1>>::FindNextKmersFromReads<KmerCollector<Kmer<>>>' requested here
num_aligned_reads += index.FindNextKmersFromReads(read_pkg, &collector);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:156:7: note: in instantiation of function template specialization 'ReadReadsAndProcessKernel<Kmer<>, ContigFlankIndex<Kmer<1>>>' requested here
if (ReadReadsAndProcessKernel<Kmer<4, uint64_t>>(opt, index)) return;
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:194:5: note: in instantiation of function template specialization 'ReadReadsAndProcess<ContigFlankIndex<Kmer<1>>>' requested here
ReadReadsAndProcess(opt, index);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:204:28: note: in instantiation of member function 'Runner<Kmer<1>>::Run' requested here
runners.emplace_back(new Runner<Kmer<1, uint64_t>>());
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:36:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:10:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap.h:51:
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:367:17: warning: builtin __has_trivial_assign is deprecated; use __is_trivially_assignable instead [-Wdeprecated-builtins]
bool, __has_trivial_assign(typename std::remove_reference<T>::type) &&
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:1924:22: note: in instantiation of template class 'phmap::is_trivially_copy_assignable<std::allocator<KmerPlus<Kmer<>, unsigned short>>>' requested here
phmap::is_trivially_copy_assignable<typename std::remove_cv<
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2158:45: note: in instantiation of default argument for 'optional_data<std::allocator<KmerPlus<Kmer<>, unsigned short>>>' required here
class optional : private optional_internal::optional_data<T>,
^~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2904:37: note: in instantiation of template class 'phmap::optional<std::allocator<KmerPlus<Kmer<>, unsigned short>>>' requested here
phmap::optional<allocator_type> alloc_;
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2913:28: note: in instantiation of template class 'phmap::container_internal::node_handle_base<phmap::container_internal::hash_policy_traits<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<>, unsigned short>>>, std::allocator<KmerPlus<Kmer<>, unsigned short>>>' requested here
class node_handle : public node_handle_base<PolicyTraits, Alloc>
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/kmer_collector.h:38:24: note: in instantiation of template class 'phmap::container_internal::node_handle<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<>, unsigned short>>, phmap::container_internal::hash_policy_traits<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<>, unsigned short>>>, std::allocator<KmerPlus<Kmer<>, unsigned short>>>' requested here
collection_.insert({kmer, mul});
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:206:16: note: in instantiation of member function 'KmerCollector<Kmer<>>::Insert' requested here
out->Insert(new_kmer < new_rkmer ? new_kmer : new_rkmer,
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:136:32: note: in instantiation of function template specialization 'ContigFlankIndex<Kmer<1>>::FindNextKmersFromReads<KmerCollector<Kmer<>>>' requested here
num_aligned_reads += index.FindNextKmersFromReads(read_pkg, &collector);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:156:7: note: in instantiation of function template specialization 'ReadReadsAndProcessKernel<Kmer<>, ContigFlankIndex<Kmer<1>>>' requested here
if (ReadReadsAndProcessKernel<Kmer<4, uint64_t>>(opt, index)) return;
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:194:5: note: in instantiation of function template specialization 'ReadReadsAndProcess<ContigFlankIndex<Kmer<1>>>' requested here
ReadReadsAndProcess(opt, index);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:204:28: note: in instantiation of member function 'Runner<Kmer<1>>::Run' requested here
runners.emplace_back(new Runner<Kmer<1, uint64_t>>());
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:36:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:10:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap.h:51:
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:329:36: warning: builtin __has_trivial_copy is deprecated; use __is_trivially_copyable instead [-Wdeprecated-builtins]
: std::integral_constant<bool, __has_trivial_copy(T) &&
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:1923:32: note: in instantiation of template class 'phmap::is_trivially_copy_constructible<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
bool unused = phmap::is_trivially_copy_constructible<T>::value&&
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2158:45: note: in instantiation of default argument for 'optional_data<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' required here
class optional : private optional_internal::optional_data<T>,
^~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2904:37: note: in instantiation of template class 'phmap::optional<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
phmap::optional<allocator_type> alloc_;
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2913:28: note: in instantiation of template class 'phmap::container_internal::node_handle_base<phmap::container_internal::hash_policy_traits<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>, std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
class node_handle : public node_handle_base<PolicyTraits, Alloc>
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/kmer_collector.h:38:24: note: in instantiation of template class 'phmap::container_internal::node_handle<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<16, unsigned int>, unsigned short>>, phmap::container_internal::hash_policy_traits<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>, std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
collection_.insert({kmer, mul});
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:206:16: note: in instantiation of member function 'KmerCollector<Kmer<16, unsigned int>>::Insert' requested here
out->Insert(new_kmer < new_rkmer ? new_kmer : new_rkmer,
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:136:32: note: in instantiation of function template specialization 'ContigFlankIndex<Kmer<1>>::FindNextKmersFromReads<KmerCollector<Kmer<16, unsigned int>>>' requested here
num_aligned_reads += index.FindNextKmersFromReads(read_pkg, &collector);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:157:7: note: in instantiation of function template specialization 'ReadReadsAndProcessKernel<Kmer<16, unsigned int>, ContigFlankIndex<Kmer<1>>>' requested here
if (ReadReadsAndProcessKernel<Kmer<kUint32PerKmerMaxK, uint32_t>>(opt, index))
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:194:5: note: in instantiation of function template specialization 'ReadReadsAndProcess<ContigFlankIndex<Kmer<1>>>' requested here
ReadReadsAndProcess(opt, index);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:204:28: note: in instantiation of member function 'Runner<Kmer<1>>::Run' requested here
runners.emplace_back(new Runner<Kmer<1, uint64_t>>());
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:36:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:10:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap.h:51:
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:242:36: warning: builtin __has_trivial_destructor is deprecated; use __is_trivially_destructible instead [-Wdeprecated-builtins]
: std::integral_constant<bool, __has_trivial_destructor(T) &&
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:331:36: note: in instantiation of template class 'phmap::is_trivially_destructible<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
is_trivially_destructible<T>::value>
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:1923:32: note: in instantiation of template class 'phmap::is_trivially_copy_constructible<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
bool unused = phmap::is_trivially_copy_constructible<T>::value&&
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2158:45: note: in instantiation of default argument for 'optional_data<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' required here
class optional : private optional_internal::optional_data<T>,
^~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2904:37: note: in instantiation of template class 'phmap::optional<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
phmap::optional<allocator_type> alloc_;
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2913:28: note: in instantiation of template class 'phmap::container_internal::node_handle_base<phmap::container_internal::hash_policy_traits<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>, std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
class node_handle : public node_handle_base<PolicyTraits, Alloc>
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/kmer_collector.h:38:24: note: (skipping 1 context in backtrace; use -ftemplate-backtrace-limit=0 to see all)
collection_.insert({kmer, mul});
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:206:16: note: in instantiation of member function 'KmerCollector<Kmer<16, unsigned int>>::Insert' requested here
out->Insert(new_kmer < new_rkmer ? new_kmer : new_rkmer,
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:136:32: note: in instantiation of function template specialization 'ContigFlankIndex<Kmer<1>>::FindNextKmersFromReads<KmerCollector<Kmer<16, unsigned int>>>' requested here
num_aligned_reads += index.FindNextKmersFromReads(read_pkg, &collector);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:157:7: note: in instantiation of function template specialization 'ReadReadsAndProcessKernel<Kmer<16, unsigned int>, ContigFlankIndex<Kmer<1>>>' requested here
if (ReadReadsAndProcessKernel<Kmer<kUint32PerKmerMaxK, uint32_t>>(opt, index))
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:194:5: note: in instantiation of function template specialization 'ReadReadsAndProcess<ContigFlankIndex<Kmer<1>>>' requested here
ReadReadsAndProcess(opt, index);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:204:28: note: in instantiation of member function 'Runner<Kmer<1>>::Run' requested here
runners.emplace_back(new Runner<Kmer<1, uint64_t>>());
^
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:36:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:10:
In file included from /wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap.h:51:
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:367:17: warning: builtin __has_trivial_assign is deprecated; use __is_trivially_assignable instead [-Wdeprecated-builtins]
bool, __has_trivial_assign(typename std::remove_reference<T>::type) &&
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:1924:22: note: in instantiation of template class 'phmap::is_trivially_copy_assignable<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
phmap::is_trivially_copy_assignable<typename std::remove_cv<
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2158:45: note: in instantiation of default argument for 'optional_data<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' required here
class optional : private optional_internal::optional_data<T>,
^~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2904:37: note: in instantiation of template class 'phmap::optional<std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
phmap::optional<allocator_type> alloc_;
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/parallel_hashmap/phmap_base.h:2913:28: note: in instantiation of template class 'phmap::container_internal::node_handle_base<phmap::container_internal::hash_policy_traits<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>, std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
class node_handle : public node_handle_base<PolicyTraits, Alloc>
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/kmer_collector.h:38:24: note: in instantiation of template class 'phmap::container_internal::node_handle<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<16, unsigned int>, unsigned short>>, phmap::container_internal::hash_policy_traits<phmap::container_internal::FlatHashSetPolicy<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>, std::allocator<KmerPlus<Kmer<16, unsigned int>, unsigned short>>>' requested here
collection_.insert({kmer, mul});
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/iterate/contig_flank_index.h:206:16: note: in instantiation of member function 'KmerCollector<Kmer<16, unsigned int>>::Insert' requested here
out->Insert(new_kmer < new_rkmer ? new_kmer : new_rkmer,
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:136:32: note: in instantiation of function template specialization 'ContigFlankIndex<Kmer<1>>::FindNextKmersFromReads<KmerCollector<Kmer<16, unsigned int>>>' requested here
num_aligned_reads += index.FindNextKmersFromReads(read_pkg, &collector);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:157:7: note: in instantiation of function template specialization 'ReadReadsAndProcessKernel<Kmer<16, unsigned int>, ContigFlankIndex<Kmer<1>>>' requested here
if (ReadReadsAndProcessKernel<Kmer<kUint32PerKmerMaxK, uint32_t>>(opt, index))
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:194:5: note: in instantiation of function template specialization 'ReadReadsAndProcess<ContigFlankIndex<Kmer<1>>>' requested here
ReadReadsAndProcess(opt, index);
^
/wrkdirs/usr/ports/biology/megahit/work/megahit-1.2.9/src/main_iterate.cpp:204:28: note: in instantiation of member function 'Runner<Kmer<1>>::Run' requested here
runners.emplace_back(new Runner<Kmer<1, uint64_t>>());
^
29 warnings generated.
ninja: build stopped: subcommand failed.
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/megahit