build started at 2026-10-16T12:53:09-03:00 port directory: /usr/ports/biology/fastp package name: fastp-1.4.0 building for: FreeBSD 14amd64-default 14.5-PRERELEASE FreeBSD 14.5-PRERELEASE amd64 maintained by: hayzam@alchemilla.io port version: 1.4.0 port revision: 0 Makefile datestamp: Oct 16 12:49:47 2026 [00:00:18] Inspecting /usr/local/poudriere/data/.m/14amd64-default/ref//usr/ports/biology/fastp for modifications to git checkout... no Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.99.20260425 Host OSVERSION: 1600026 Jail OSVERSION: 1405500 Builder Id: Builder jail path: /usr/local/poudriere/data/.m/14amd64-default/ref Ref jail path: /usr/local/poudriere/data/.m/14amd64-default/ref Job Idx: Jail Id (no networking) : 2749 Jail Name (no networking): 14amd64-default Jail Id (networking) : 2750 Jail Name (networking) : 14amd64-default-n ---Begin Environment--- SHELL=/bin/sh OSVERSION=1405500 UNAME_v=FreeBSD 14.5-PRERELEASE UNAME_r=14.5-PRERELEASE 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 POUDRIERE_VERSION=3.4.99.20260425 LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM=screen-256color GID=0 OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 UID=0 PWD=/usr/local/poudriere/data/.m/14amd64-default/ref/.p OUTPUT_REDIRECTED_STDOUT=3 NO_WARNING_PKG_INSTALL_EOL=yes P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=14amd64-default OLDPWD=/usr/local/poudriere/data/.m/14amd64-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.99.20260425 PREFIX=/usr/local POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV=PACKAGES=/tmp/pkgs PKGREPOSITORY=/tmp/pkgs PKGLATESTREPOSITORY=/tmp/pkgs/Latest FLAVOR= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- hayzam@alchemilla.io --End MAINTAINER-- --PORTVERSION-- 1.4.0 --End PORTVERSION-- --PORTREVISION-- 0 --End PORTREVISION-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- MAKE=/usr/local/bin/gmake PKG_CONFIG=pkgconf XDG_DATA_HOME=/wrkdirs/usr/ports/biology/fastp/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/fastp/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/fastp/work/.cache HOME=/wrkdirs/usr/ports/biology/fastp/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/fastp/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/fastp/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CMAKE_PREFIX_PATH="/usr/local" --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/fastp/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/fastp/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/fastp/work/.cache HOME=/wrkdirs/usr/ports/biology/fastp/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/fastp/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/fastp/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 PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include " 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-- OSREL=14.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/fastp" EXAMPLESDIR="share/examples/fastp" DATADIR="share/fastp" WWWDIR="www/fastp" ETCDIR="etc/fastp" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/fastp DOCSDIR=/usr/local/share/doc/fastp EXAMPLESDIR=/usr/local/share/examples/fastp WWWDIR=/usr/local/www/fastp ETCDIR=/usr/local/etc/fastp --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles FORCE_PACKAGE=yes PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### /usr/local/etc/poudriere.d/14amd64-make.conf #### #DEFAULT_VERSIONS+= ssl=libressl #DEFAULT_VERSIONS+=emacs=nox #DEFAULT_VERSIONS= python3=3.11 python=3.11 #DEFAULT_VERSIONS=php=7.2 #DEFAULT_VERSIONS=php=7.2 emacs=nox #DEVELOPER=yes #DISABLE_LICENSES=yes #DYNAMIC_SPACE_SIZE=10Gb #LICENSES_ACCEPTED+= CSDALSA #OPTIONS_UNSET=DBUS DOCS HAL IPV6 ISPELL KDE KDE4 NVIDIA NVIDIA_GL NLS PUSEAUDIO #QT4_OPTIONS= #WITH_DEBUG=yes #WITH_DEBUG_PORTS+=editors/emacs-devel #.if ${.CURDIR:M*/editors/emacs*} #FLAVOR?=nox #.endif accessibility_speech-dispatcher_UNSET+= PULSEAUDIO # OPTIONS_SET_FORCE+=GSSAPI_MIT # OPTIONS_UNSET_FORCE+=GSSAPI_BASE GSSAPI_HEIMDAL GSSAPI_NONE # ftp_curl_SET_FORCE+=GSSAPI_HEIMDAL # ftp_curl_UNSET_FORCE+=GSSAPI_BASE GSSAPI_MIT GSSAPI_NONE PATCH_CONTINUE_ON_FAIL=yes #.if !${.CURDIR:M*/devel/autoconf*} && !${.CURDIR:M*/devel/automake*} ALWAYS_TRY_AUTORECONF=yes #.endif #### Misc Poudriere #### .include "/etc/make.conf.ports_env" ---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) 63507 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 (kbytes, -y) unlimited --End resource limits-- times start [shell] (user/sys/real): 0m0.229s 0m1.421s 0m18.000s times start [child] (user/sys/real): 0m13.312s 0m11.495s 0m18.000s =================================================== ===== env: DEVELOPER_MODE=yes DEVELOPER=1 STRICT_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> License MIT accepted by the user =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> fastp-1.4.0 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.8.4.pkg [14amd64-default] Installing pkg-2.8.4... [14amd64-default] Extracting pkg-2.8.4: .......... done ===> fastp-1.4.0 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of fastp-1.4.0 =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes STRICT_DEPENDS=yes USER=root UID=0 GID=0 ===> License MIT accepted by the user ===> fastp-1.4.0 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by fastp-1.4.0 for building =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes STRICT_DEPENDS=yes USER=root UID=0 GID=0 ===> License MIT accepted by the user ===> fastp-1.4.0 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by fastp-1.4.0 for building => SHA256 Checksum OK for OpenGene-fastp-v1.4.0_GH0.tar.gz. =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes STRICT_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> License MIT accepted by the user ===> fastp-1.4.0 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by fastp-1.4.0 for building ===> Extracting for fastp-1.4.0 => SHA256 Checksum OK for OpenGene-fastp-v1.4.0_GH0.tar.gz. =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes DEVELOPER=1 STRICT_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> Patching for fastp-1.4.0 ===> Applying FreeBSD patches for fastp-1.4.0 from /usr/ports/biology/fastp/files =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> fastp-1.4.0 depends on package: gmake>=4.4.1 - not found ===> Installing existing package /packages/All/gmake-4.4.1.pkg [14amd64-default] Installing gmake-4.4.1... [14amd64-default] `-- Installing gettext-runtime-1.0_1... [14amd64-default] | `-- Installing indexinfo-0.3.1_1... [14amd64-default] | `-- Extracting indexinfo-0.3.1_1: .... done [14amd64-default] `-- Extracting gettext-runtime-1.0_1: .......... done [14amd64-default] Extracting gmake-4.4.1: .......... done ===> fastp-1.4.0 depends on package: gmake>=4.4.1 - found ===> Returning to build of fastp-1.4.0 ===> fastp-1.4.0 depends on package: pkgconf>=1.3.0_1 - not found ===> Installing existing package /packages/All/pkgconf-3.0.7,1.pkg [14amd64-default] Installing pkgconf-3.0.7,1... [14amd64-default] Extracting pkgconf-3.0.7,1: .......... done ===> fastp-1.4.0 depends on package: pkgconf>=1.3.0_1 - found ===> Returning to build of fastp-1.4.0 =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> fastp-1.4.0 depends on shared library: libdeflate.so - not found ===> Installing existing package /packages/All/libdeflate-1.26.pkg [14amd64-default] Installing libdeflate-1.26... [14amd64-default] Extracting libdeflate-1.26: .......... done ===> fastp-1.4.0 depends on shared library: libdeflate.so - found (/usr/local/lib/libdeflate.so) ===> Returning to build of fastp-1.4.0 ===> fastp-1.4.0 depends on shared library: libhwy.so - not found ===> Installing existing package /packages/All/highway-1.4.0.pkg [14amd64-default] Installing highway-1.4.0... [14amd64-default] Extracting highway-1.4.0: .......... done ===> fastp-1.4.0 depends on shared library: libhwy.so - found (/usr/local/lib/libhwy.so) ===> Returning to build of fastp-1.4.0 ===> fastp-1.4.0 depends on shared library: libisal.so - not found ===> Installing existing package /packages/All/isa-l-2.32.1.pkg [14amd64-default] Installing isa-l-2.32.1... [14amd64-default] Extracting isa-l-2.32.1: .......... done ===> fastp-1.4.0 depends on shared library: libisal.so - found (/usr/local/lib/libisal.so) ===> Returning to build of fastp-1.4.0 =========================================================================== =>> Recording filesystem state for prebuild... done =================================================== ===== env: DEVELOPER_MODE=yes STRICT_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> fastp-1.4.0 depends on package: gmake>=4.4.1 - found ===> fastp-1.4.0 depends on package: pkgconf>=1.3.0_1 - found ===> fastp-1.4.0 depends on shared library: libdeflate.so - found (/usr/local/lib/libdeflate.so) ===> fastp-1.4.0 depends on shared library: libhwy.so - found (/usr/local/lib/libhwy.so) ===> fastp-1.4.0 depends on shared library: libisal.so - found (/usr/local/lib/libisal.so) ===> Configuring for fastp-1.4.0 =========================================================================== =================================================== ===== env: DEVELOPER_MODE=yes STRICT_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> Building for fastp-1.4.0 c++ -c src/adaptertrimmer.cpp -o obj/adaptertrimmer.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/basecorrector.cpp -o obj/basecorrector.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/duplicate.cpp -o obj/duplicate.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/evaluator.cpp -o obj/evaluator.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/fastareader.cpp -o obj/fastareader.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/fastqreader.cpp -o obj/fastqreader.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/filter.cpp -o obj/filter.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/filterresult.cpp -o obj/filterresult.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/htmlreporter.cpp -o obj/htmlreporter.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/jsonreporter.cpp -o obj/jsonreporter.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/main.cpp -o obj/main.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/matcher.cpp -o obj/matcher.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include src/matcher.cpp:12:29: warning: variable length arrays in C++ are a Clang extension [-Wvla-cxx-extension] 12 | int accMismatchFromLeft[cmplen]; | ^~~~~~ src/matcher.cpp:12:29: note: function parameter 'cmplen' with unknown value cannot be used in a constant expression src/matcher.cpp:10:86: note: declared here 10 | bool Matcher::matchWithOneInsertion(const char* insData, const char* normalData, int cmplen, int diffLimit) { | ^ src/matcher.cpp:13:30: warning: variable length arrays in C++ are a Clang extension [-Wvla-cxx-extension] 13 | int accMismatchFromRight[cmplen]; | ^~~~~~ src/matcher.cpp:13:30: note: function parameter 'cmplen' with unknown value cannot be used in a constant expression src/matcher.cpp:10:86: note: declared here 10 | bool Matcher::matchWithOneInsertion(const char* insData, const char* normalData, int cmplen, int diffLimit) { | ^ src/matcher.cpp:58:29: warning: variable length arrays in C++ are a Clang extension [-Wvla-cxx-extension] 58 | int accMismatchFromLeft[cmplen]; | ^~~~~~ src/matcher.cpp:58:29: note: function parameter 'cmplen' with unknown value cannot be used in a constant expression src/matcher.cpp:56:84: note: declared here 56 | int Matcher::diffWithOneInsertion(const char* insData, const char* normalData, int cmplen, int diffLimit) { | ^ src/matcher.cpp:59:30: warning: variable length arrays in C++ are a Clang extension [-Wvla-cxx-extension] 59 | int accMismatchFromRight[cmplen]; | ^~~~~~ src/matcher.cpp:59:30: note: function parameter 'cmplen' with unknown value cannot be used in a constant expression src/matcher.cpp:56:84: note: declared here 56 | int Matcher::diffWithOneInsertion(const char* insData, const char* normalData, int cmplen, int diffLimit) { | ^ 4 warnings generated. c++ -c src/nucleotidetree.cpp -o obj/nucleotidetree.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/options.cpp -o obj/options.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/overlapanalysis.cpp -o obj/overlapanalysis.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/peprocessor.cpp -o obj/peprocessor.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/polyx.cpp -o obj/polyx.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/processor.cpp -o obj/processor.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/read.cpp -o obj/read.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/readpool.cpp -o obj/readpool.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/seprocessor.cpp -o obj/seprocessor.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/sequence.cpp -o obj/sequence.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/simd.cpp -o obj/simd.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/stats.cpp -o obj/stats.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/threadconfig.cpp -o obj/threadconfig.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/umiprocessor.cpp -o obj/umiprocessor.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/unittest.cpp -o obj/unittest.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/writer.cpp -o obj/writer.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ -c src/writerthread.cpp -o obj/writerthread.o -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -pthread -I. -I./inc -I/usr/local/include -DHWY_SHARED_DEFINE -I/usr/local/include -I/usr/local/include c++ ./obj/adaptertrimmer.o ./obj/basecorrector.o ./obj/duplicate.o ./obj/evaluator.o ./obj/fastareader.o ./obj/fastqreader.o ./obj/filter.o ./obj/filterresult.o ./obj/htmlreporter.o ./obj/jsonreporter.o ./obj/main.o ./obj/matcher.o ./obj/nucleotidetree.o ./obj/options.o ./obj/overlapanalysis.o ./obj/peprocessor.o ./obj/polyx.o ./obj/processor.o ./obj/read.o ./obj/readpool.o ./obj/seprocessor.o ./obj/sequence.o ./obj/simd.o ./obj/stats.o ./obj/threadconfig.o ./obj/umiprocessor.o ./obj/unittest.o ./obj/writer.o ./obj/writerthread.o -o fastp -L/usr/local/lib -L/usr/local/lib -L/usr/local/lib -L/usr/local/lib -lisal -ldeflate -lhwy -lpthread =========================================================================== =>> Checking for filesystem violations... done =================================================== ===== env: DEVELOPER_MODE=yes USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =>> Recording filesystem state for prestage... done =================================================== ===== env: DEVELOPER_MODE=yes STRICT_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> Staging for fastp-1.4.0 ===> Generating temporary packing list mkdir -p /wrkdirs/usr/ports/biology/fastp/work/stage/usr/local/bin install fastp /wrkdirs/usr/ports/biology/fastp/work/stage/usr/local/bin/fastp Installed. /usr/bin/strip /wrkdirs/usr/ports/biology/fastp/work/stage/usr/local/bin/fastp ====> Compressing man pages (compress-man) =========================================================================== ====> Running Q/A tests (stage-qa) ====> Checking for pkg-plist issues (check-plist) ===> Parsing plist ===> Checking for items in STAGEDIR missing from pkg-plist ===> Checking for items in pkg-plist which are not in STAGEDIR ===> No pkg-plist issues found (check-plist) =>> Checking for staging violations... done =================================================== ===== env: DEVELOPER_MODE=yes PACKAGES=/tmp/pkgs PKGREPOSITORY=/tmp/pkgs PKGLATESTREPOSITORY=/tmp/pkgs/Latest 'PKG_NOTES=port_checkout_unclean' 'PKG_NOTE_port_checkout_unclean=no' PKG_NO_VERSION_FOR_DEPS=1 STRICT_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> Building packages for fastp-1.4.0 ===> Building fastp-1.4.0 =========================================================================== =>> Recording filesystem state for preinst... done =================================================== ===== env: DEVELOPER_MODE=yes STRICT_DEPENDS=yes USER=root UID=0 GID=0 ===> Installing for fastp-1.4.0 ===> Checking if fastp is already installed ===> Registering installation for fastp-1.4.0 [14amd64-default] Installing fastp-1.4.0... =========================================================================== =>> Checking shared library dependencies 0x0000000000000001 NEEDED Shared library: [libc++.so.1] 0x0000000000000001 NEEDED Shared library: [libc.so.7] 0x0000000000000001 NEEDED Shared library: [libcxxrt.so.1] 0x0000000000000001 NEEDED Shared library: [libdeflate.so.0] 0x0000000000000001 NEEDED Shared library: [libgcc_s.so.1] 0x0000000000000001 NEEDED Shared library: [libhwy.so.1] 0x0000000000000001 NEEDED Shared library: [libisal.so.2] 0x0000000000000001 NEEDED Shared library: [libm.so.5] 0x0000000000000001 NEEDED Shared library: [libthr.so.3] =================================================== ===== env: DEVELOPER_MODE=yes STRICT_DEPENDS=yes USER=root UID=0 GID=0 ===> Deinstalling for fastp ===> Deinstalling fastp-1.4.0 Updating database digests format: ......... done Checking integrity... done (0 conflicting) Deinstallation has been requested for the following 1 packages (of 0 packages in the universe): Installed packages to be REMOVED: fastp: 1.4.0 Number of packages to be removed: 1 [14amd64-default] [1/1] Deinstalling fastp-1.4.0... [14amd64-default] [1/1] Deleting files for fastp-1.4.0: .... done =========================================================================== =>> Checking for extra files and directories [00:00:41] Installing from package [14amd64-default] Installing fastp-1.4.0... [14amd64-default] Extracting fastp-1.4.0: .... done [00:00:41] Cleaning up ===> Cleaning for fastp-1.4.0 [00:00:41] Deinstalling package Updating database digests format: . done Checking integrity... done (0 conflicting) Deinstallation has been requested for the following 1 packages (of 0 packages in the universe): Installed packages to be REMOVED: fastp: 1.4.0 Number of packages to be removed: 1 [14amd64-default] [1/1] Deinstalling fastp-1.4.0... [14amd64-default] [1/1] Deleting files for fastp-1.4.0: .... done build of biology/fastp | fastp-1.4.0 ended at 2026-10-16T12:53:32-03:00 build time: 00:00:23 times end [shell] (user/sys/real): 0m0.237s 0m1.452s 0m23.000s times end [child] (user/sys/real): 1m35.509s 0m16.542s 0m23.000s