[package - main-powerpc64le-default][biology/megahit] Failed for megahit-1.2.9_1 in build
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Date: Mon, 12 Feb 2024 02:19:13 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/main-powerpc64le-default/p2577ea660d37_s4347ef6050/logs/megahit-1.2.9_1.log
Build URL: https://pkg-status.freebsd.org/foul2/build.html?mastername=main-powerpc64le-default&build=p2577ea660d37_s4347ef6050
Log:
=>> Building biology/megahit
build started at Mon Feb 12 02:14:44 UTC 2024
port directory: /usr/ports/biology/megahit
package name: megahit-1.2.9_1
building for: FreeBSD main-powerpc64le-default-job-06 15.0-CURRENT FreeBSD 15.0-CURRENT 1500008 powerpc
maintained by: jwb@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 536 Dec 29 2022 /usr/ports/biology/megahit/Makefile
Ports top last git commit: 2577ea660d
Ports top unclean checkout: no
Port dir last git commit: 687b6f92f4
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.4.1
Host OSVERSION: 1500000
Jail OSVERSION: 1500008
Job Id: 06
!!! Jail is newer than host. (Jail: 1500008, Host: 1500000) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!
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--MAINTAINER--
jwb@FreeBSD.org
--End MAINTAINER--
--CONFIGURE_ARGS--
--End CONFIGURE_ARGS--
--CONFIGURE_ENV--
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
--End CONFIGURE_ENV--
--MAKE_ENV--
NINJA_STATUS="[%p %s/%t] " 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 MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES DESTDIR=/wrkdirs/usr/ports/biology/megahit/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -pthread -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -pthread -fstack-protector-strong -fno-strict-aliasing " BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install
-s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444"
--End MAKE_ENV--
--PLIST_SUB--
CMAKE_BUILD_TYPE="release" PYTHON_INCLUDEDIR=include/python3.9 PYTHON_LIBDIR=lib/python3.9 PYTHON_PLATFORM=freebsd15 PYTHON_SITELIBDIR=lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" OSREL=15.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/megahit" EXAMPLESDIR="share/examples/megahit" DATADIR="share/megahit" WWWDIR="www/megahit" ETCDIR="etc/megahit"
--End PLIST_SUB--
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BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
#### ####
# 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*
# try the next if the size is mismatched though.
#MASTER_SITE_FREEBSD=yes
# Build ALLOW_MAKE_JOBS_PACKAGES with 3 jobs
MAKE_JOBS_NUMBER=3
#### Misc Poudriere ####
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GID=0
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---End make.conf---
--Resource limits--
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file size (512-blocks, -f) unlimited
data seg size (kbytes, -d) 33554432
stack size (kbytes, -s) 524288
core file size (512-blocks, -c) unlimited
max memory size (kbytes, -m) unlimited
locked memory (kbytes, -l) unlimited
max user processes (-u) 89999
open files (-n) 8192
virtual mem size (kbytes, -v) unlimited
swap limit (kbytes, -w) unlimited
socket buffer size (bytes, -b) unlimited
pseudo-terminals (-p) unlimited
kqueues (-k) unlimited
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_1.pkg
[main-powerpc64le-default-job-06] Installing pkg-1.20.9_1...
[main-powerpc64le-default-job-06] Extracting pkg-1.20.9_1: .......... 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-3.28.2.pkg
[main-powerpc64le-default-job-06] Installing cmake-core-3.28.2...
[main-powerpc64le-default-job-06] `-- Installing expat-2.5.0_1...
[main-powerpc64le-default-job-06] `-- Extracting expat-2.5.0_1: .......... done
[main-powerpc64le-default-job-06] `-- Installing jsoncpp-1.9.5...
[main-powerpc64le-default-job-06] `-- Extracting jsoncpp-1.9.5: .......... done
[main-powerpc64le-default-job-06] `-- Installing libuv-1.47.0...
[main-powerpc64le-default-job-06] `-- Extracting libuv-1.47.0: .......... done
[main-powerpc64le-default-job-06] `-- Installing rhash-1.4.4_1...
[main-powerpc64le-default-job-06] | `-- Installing gettext-runtime-0.22.3_1...
[main-powerpc64le-default-job-06] | | `-- Installing indexinfo-0.3.1...
[main-powerpc64le-default-job-06] | | `-- Extracting indexinfo-0.3.1: .... done
[main-powerpc64le-default-job-06] | `-- Extracting gettext-runtime-0.22.3_1: .......... done
[main-powerpc64le-default-job-06] `-- Extracting rhash-1.4.4_1: .......... done
[main-powerpc64le-default-job-06] Extracting cmake-core-3.28.2: .......... done
<snip>
194 | 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
204 | 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]
242 | : 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
331 | 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
1923 | 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
2158 | 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
2904 | 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
2913 | 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)
38 | 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
206 | 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
136 | 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
156 | 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
194 | 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
204 | 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]
367 | 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
1924 | 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
2158 | 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
2904 | 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
2913 | 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
38 | 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
206 | 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
136 | 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
156 | 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
194 | 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
204 | 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]
329 | : 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
1923 | 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
2158 | 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
2904 | 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
2913 | 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
38 | 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
206 | 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
136 | 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
157 | 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
194 | 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
204 | 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]
242 | : 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
331 | 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
1923 | 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
2158 | 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
2904 | 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
2913 | 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)
38 | 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
206 | 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
136 | 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
157 | 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
194 | 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
204 | 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]
367 | 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
1924 | 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
2158 | 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
2904 | 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
2913 | 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
38 | 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
206 | 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
136 | 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
157 | 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
194 | 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
204 | 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