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Maintainer: [email protected] Log URL: https://pkg-status.freebsd.org/beefy24/data/main-amd64-default/p4731beeec6f8_sc4f08d46c7f/logs/iqtree-3.1.1.log Build URL: https://pkg-status.freebsd.org/beefy24/build.html?mastername=main-amd64-default&build=p4731beeec6f8_sc4f08d46c7f Log: =>> Building biology/iqtree build started at Sun May 3 05:08:00 UTC 2026 port directory: /usr/ports/biology/iqtree package name: iqtree-3.1.1 building for: FreeBSD main-amd64-default-job-34 16.0-CURRENT FreeBSD 16.0-CURRENT 1600018 amd64 maintained by: [email protected] Makefile datestamp: -rw-r--r-- 1 root wheel 988 Apr 21 01:01 /usr/ports/biology/iqtree/Makefile Ports top last git commit: 4731beeec6f8dad167fa3b3ff8d4848aea26c2fc Ports top unclean checkout: no Port dir last git commit: f5a93bb325aa7ad9a5e4bee81144a7633766e5d5 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.8 Host OSVERSION: 1600014 Jail OSVERSION: 1600018 Job Id: 34 !!! Jail is newer than host. (Jail: 1600018, Host: 1600014) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh OSVERSION=1600018 UNAME_v=FreeBSD 16.0-CURRENT 1600018 UNAME_r=16.0-CURRENT BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin MAKE_OBJDIR_CHECK_WRITABLE=0 LOCALBASE=/usr/local USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.8 MASTERMNT=/usr/local/poudriere/data/.m/main-amd64-default/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 PWD=/usr/local/poudriere/data/.m/main-amd64-default/34/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=main-amd64-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/main-amd64-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.8 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ===> The following configuration options are available for iqtree-3.1.1: EXAMPLES=on: Build and/or install examples ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- [email protected] --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/iqtree/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/iqtree/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/iqtree/work/.cache HOME=/wrkdirs/usr/ports/biology/iqtree/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/iqtree/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/iqtree/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/iqtree/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/iqtree/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/iqtree/work/.cache HOME=/wrkdirs/usr/ports/biology/iqtree/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/iqtree/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/iqtree/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/iqtree/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="insta ll -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- PORTEXAMPLES="" CMAKE_BUILD_TYPE="release" OSREL=16.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/iqtree" EXAMPLESDIR="share/examples/iqtree" DATADIR="share/iqtree" WWWDIR="www/iqtree" ETCDIR="etc/iqtree" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/iqtree DOCSDIR=/usr/local/share/doc/iqtree EXAMPLESDIR=/usr/local/share/examples/iqtree WWWDIR=/usr/local/www/iqtree ETCDIR=/usr/local/etc/iqtree --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes 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 #### .include "/etc/make.conf.ports_env" GID=0 UID=0 ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited 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 pipebuf (-y) unlimited --End resource limits-- =======================<phase: check-sanity >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv2 accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> iqtree-3.1.1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.7.5.pkg [main-amd64-default-job-34] Installing pkg-2.7.5... [main-amd64-default-job-34] Extracting pkg-2.7.5: .......... done ===> iqtree-3.1.1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of iqtree-3.1.1 =========================================================================== =======================<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 GPLv2 accepted by the user ===> Fetching all distfiles required by iqtree-3.1.1 for building =========================================================================== =======================<phase: checksum >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by iqtree-3.1.1 for building => SHA256 Checksum OK for iqtree-iqtree3-v3.1.1_GH0.tar.gz. => SHA256 Checksum OK for tothuhien-lsd2-c61110f3a4fa05325b45c97b2134792ff9d55d4c_GH0.tar.gz. => SHA256 Checksum OK for iqtree-cmaple-4795b124543c02439722f36cff439bd6517a825b_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 GPLv2 accepted by the user ===> Fetching all distfiles required by iqtree-3.1.1 for building ===> Extracting for iqtree-3.1.1 => SHA256 Checksum OK for iqtree-iqtree3-v3.1.1_GH0.tar.gz. => SHA256 Checksum OK for tothuhien-lsd2-c61110f3a4fa05325b45c97b2134792ff9d55d4c_GH0.tar.gz. => SHA256 Checksum OK for iqtree-cmaple-4795b124543c02439722f36cff439bd6517a825b_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 iqtree-3.1.1 ===> Applying FreeBSD patches for iqtree-3.1.1 from /usr/ports/biology/iqtree/files =========================================================================== =======================<phase: build-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> iqtree-3.1.1 depends on package: boost-libs>=0 - not found ===> Installing existing package /packages/All/boost-libs-1.89.0_2.pkg [main-amd64-default-job-34] Installing boost-libs-1.89.0_2... [main-amd64-default-job-34] `-- Installing icu-76.1,1... [main-amd64-default-job-34] `-- Extracting icu-76.1,1: .......... done [main-amd64-default-job-34] `-- Installing zstd-1.5.7_1... [main-amd64-default-job-34] `-- Extracting zstd-1.5.7_1: .......... done [main-amd64-default-job-34] Extracting boost-libs-1.89.0_2: .......... done <snip> | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:137:23: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 137 | const auto dot401 = simde_mm256_add_pd(dot4, dot01); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:138:25: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 138 | const auto dot23401 = simde_mm256_add_pd(dot23, dot401); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:140:10: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 140 | return horiz_sum(dot23401); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:57:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 57 | const simde__m256d a = simde_mm256_loadu_pd(p1 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:58:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 58 | const simde__m256d b = simde_mm256_loadu_pd(p2 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:59:10: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 59 | return simde_mm256_mul_pd(a, b); | ^ In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.cpp:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/alignment.h:2: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/sequence.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/seqregions.h:4: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/modelbase.h:8: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:34: /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/libraries/SIMDe/simde/x86/avx.h:4492:12: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 4492 | a_ = simde__m256d_to_private(a), | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/libraries/SIMDe/simde/x86/avx.h:4493:12: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 4493 | b_ = simde__m256d_to_private(b); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/libraries/SIMDe/simde/x86/avx.h:4507:12: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 4507 | return simde__m256d_from_private(r_); | ^ In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.cpp:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/alignment.h:2: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/sequence.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/seqregions.h:4: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/modelbase.h:8: /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:57:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 57 | const simde__m256d a = simde_mm256_loadu_pd(p1 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:58:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 58 | const simde__m256d b = simde_mm256_loadu_pd(p2 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:59:10: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 59 | return simde_mm256_mul_pd(a, b); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:57:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 57 | const simde__m256d a = simde_mm256_loadu_pd(p1 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:58:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 58 | const simde__m256d b = simde_mm256_loadu_pd(p2 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:59:10: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 59 | return simde_mm256_mul_pd(a, b); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:57:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 57 | const simde__m256d a = simde_mm256_loadu_pd(p1 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:58:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 58 | const simde__m256d b = simde_mm256_loadu_pd(p2 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:59:10: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 59 | return simde_mm256_mul_pd(a, b); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:57:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 57 | const simde__m256d a = simde_mm256_loadu_pd(p1 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:58:26: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 58 | const simde__m256d b = simde_mm256_loadu_pd(p2 + lanes); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:59:10: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 59 | return simde_mm256_mul_pd(a, b); | ^ In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.cpp:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/alignment.h:2: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/sequence.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/seqregions.h:4: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/modelbase.h:8: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:34: /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/libraries/SIMDe/simde/x86/avx.h:1549:12: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 1549 | a_ = simde__m256d_to_private(a), | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/libraries/SIMDe/simde/x86/avx.h:1550:12: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 1550 | b_ = simde__m256d_to_private(b); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/libraries/SIMDe/simde/x86/avx.h:1564:12: warning: AVX vector return of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 1564 | return simde__m256d_from_private(r_); | ^ In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.cpp:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/alignment.h:2: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/sequence.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/seqregions.h:4: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/modelbase.h:8: /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:77:23: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 77 | simde__m128d vlow = simde_mm256_castpd256_pd128(v); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:78:24: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 78 | simde__m128d vhigh = simde_mm256_extractf128_pd(v, 1); // high 128 | ^ In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.cpp:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/tree.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/alignment.h:2: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/sequence.h:1: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/seqregions.h:4: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/modelbase.h:8: In file included from /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/tree/../alignment/../model/../utils/matrix.h:34: /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/libraries/SIMDe/simde/x86/avx.h:1996:31: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 1996 | simde__m256d_private a_ = simde__m256d_to_private(a); | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/cmaple/libraries/SIMDe/simde/x86/avx.h:3473:29: warning: AVX vector argument of type 'simde__m256d' (vector of 4 'simde_float64' values) without 'avx' enabled changes the ABI [-Wpsabi] 3473 | simde__m256d_private a_ = simde__m256d_to_private(a); | ^ 53 warnings generated. 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-I/wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib/gcc_clang -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -std=c++17 -fopenmp -pthread -O3 -ffunction-sections -fdata-sections -std=gnu++11 -I/usr/local/include/eigen3 -I/usr/local/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/advanced.cpp.o -MF terraphast/CMakeFiles/terraphast.dir/li b/advanced.cpp.o.d -o terraphast/CMakeFiles/terraphast.dir/lib/advanced.cpp.o -c /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib/advanced.cpp [ 80% 261/321] /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST -DUSE_BOOSTER -DUSE_CMAPLE -DUSE_LSD2 -D_USE_PTHREADS -I/wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1 -I/wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/yaml-cpp/include -I/wrkdirs/usr/ports/biology/iqtree/work/.build -I/wrkdirs/usr/ports/biology/iqtree/work/.build/cmaple -I/wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/include -I/wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib -I/wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib/gcc_clang -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -std=c++17 -fopenmp -pthread -O3 -ffunction-sections -fdata-sections -std=gnu++11 -I/usr/local/include/eigen3 -I/usr/local/include -D__SSE3 -msse3 -march=native -Wall -Wextra -Wpedantic -Wconversion -Wsign-conversion -MD -MT terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o -MF terraphast/CMakeFiles/terraphast.di r/lib/clamped_uint.cpp.o.d -o terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o -c /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib/clamped_uint.cpp FAILED: [code=1] terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o /usr/bin/c++ -DIQTREE_TERRAPHAST -DIQ_TREE -DUSE_BOOST 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terraphast/CMakeFiles/terraphast.dir/lib/clamped_uint.cpp.o -c /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib/clamped_uint.cpp /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib/clamped_uint.cpp:60:6: error: definition with same mangled name '_ZN8terraceseqILb0EEEbNS_12checked_uintIXT_EEES2_' as another definition 60 | bool operator==(checked_uint<except> a, checked_uint<except> b) { | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib/clamped_uint.cpp:60:6: note: previous definition is here /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib/clamped_uint.cpp:60:6: error: definition with same mangled name '_ZN8terraceseqILb1EEEbNS_12checked_uintIXT_EEES2_' as another definition 60 | bool operator==(checked_uint<except> a, checked_uint<except> b) { | ^ /wrkdirs/usr/ports/biology/iqtree/work/iqtree3-3.1.1/terraphast/lib/clamped_uint.cpp:60:6: note: previous definition is here 2 errors generated. 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Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to the maintainer. *** Error code 1 Stop. make: stopped making "build" in /usr/ports/biology/iqtree
