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Maintainer: [email protected] Log URL: https://pkg-status.freebsd.org/beefy15/data/135i386-default/017c6673b5ab/logs/seqkit-2.11.0_4.log Build URL: https://pkg-status.freebsd.org/beefy15/build.html?mastername=135i386-default&build=017c6673b5ab Log: =>> Building biology/seqkit build started at Sat Feb 14 11:53:26 UTC 2026 port directory: /usr/ports/biology/seqkit package name: seqkit-2.11.0_4 building for: FreeBSD 135i386-default-job-11 13.5-RELEASE-p9 FreeBSD 13.5-RELEASE-p9 i386 maintained by: [email protected] Makefile datestamp: -rw-r--r-- 1 root wheel 767 Feb 12 01:03 /usr/ports/biology/seqkit/Makefile Ports top last git commit: 017c6673b5ab92e36deb712c6b98c300cefde1fa Ports top unclean checkout: no Port dir last git commit: 97685c188649d678a8a0e5fde3e8ecb842bf9422 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.4-22-g8faef853 Host OSVERSION: 1600007 Jail OSVERSION: 1305000 Job Id: 11 ---Begin Environment--- SHELL=/bin/csh BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 OSVERSION=1305000 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin MAKE_OBJDIR_CHECK_WRITABLE=0 UNAME_m=i386 UNAME_p=i386 UNAME_r=13.5-RELEASE-p9 LOCALBASE=/usr/local UNAME_v=FreeBSD 13.5-RELEASE-p9 USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.4-22-g8faef853 MASTERMNT=/usr/local/poudriere/data/.m/135i386-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/135i386-default/11/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=135i386-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/135i386-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.4-22-g8faef853 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--- ---End OPTIONS List--- --MAINTAINER-- [email protected] --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/seqkit/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/seqkit/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/seqkit/work/.cache HOME=/wrkdirs/usr/ports/biology/seqkit/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/seqkit/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/seqkit/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-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/seqkit/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/seqkit/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/seqkit/work/.cache HOME=/wrkdirs/usr/ports/biology/seqkit/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/seqkit/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/seqkit/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 -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="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- OSREL=13.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/seqkit" EXAMPLESDIR="share/examples/seqkit" DATADIR="share/seqkit" WWWDIR="www/seqkit" ETCDIR="etc/seqkit" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/seqkit DOCSDIR=/usr/local/share/doc/seqkit EXAMPLESDIR=/usr/local/share/examples/seqkit WWWDIR=/usr/local/www/seqkit ETCDIR=/usr/local/etc/seqkit --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 MACHINE=i386 MACHINE_ARCH=i386 ARCH=${MACHINE_ARCH} #### #### # 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) 524288 stack size (kbytes, -s) 65536 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 MIT accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> seqkit-2.11.0_4 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.5.1.pkg [135i386-default-job-11] Installing pkg-2.5.1... [135i386-default-job-11] Extracting pkg-2.5.1: .......... done ===> seqkit-2.11.0_4 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of seqkit-2.11.0_4 =========================================================================== =======================<phase: fetch-depends >============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> seqkit-2.11.0_4 depends on file: /usr/local/bin/go125 - not found ===> Installing existing package /packages/All/go125-1.25.7.pkg [135i386-default-job-11] Installing go125-1.25.7... [135i386-default-job-11] Extracting go125-1.25.7: .......... done ===> seqkit-2.11.0_4 depends on file: /usr/local/bin/go125 - found ===> Returning to build of seqkit-2.11.0_4 =========================================================================== =======================<phase: fetch >============================ ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License MIT accepted by the user ===> Fetching all distfiles required by seqkit-2.11.0_4 for building ===> Fetching github.com/shenwei356/seqkit/v2 dependencies # get https://proxy.golang.org/github.com/mattn/go-runewidth/@v/v0.0.14.mod # get https://proxy.golang.org/git.sr.ht/~sbinet/gg/@v/v0.3.1.mod # get https://proxy.golang.org/github.com/fsnotify/fsnotify/@v/v1.5.4.mod # get https://proxy.golang.org/github.com/go-fonts/liberation/@v/v0.3.0.mod # get https://proxy.golang.org/github.com/ajstarks/svgo/@v/v0.0.0-20211024235047-1546f124cd8b.mod # get https://proxy.golang.org/github.com/%21vivid%21cortex/ewma/@v/v1.1.1.mod # get https://proxy.golang.org/github.com/go-latex/latex/@v/v0.0.0-20230307184459-12ec69307ad9.mod # get https://proxy.golang.org/github.com/araddon/dateparse/@v/v0.0.0-20210429162001-6b43995a97de.mod # get https://proxy.golang.org/github.com/go-pdf/fpdf/@v/v0.6.0.mod # get https://proxy.golang.org/github.com/biogo/biogo/@v/v1.0.4.mod # get https://proxy.golang.org/github.com/klauspost/pgzip/@v/v1.2.6.mod # get https://proxy.golang.org/github.com/biogo/hts/@v/v1.4.4.mod # get https://proxy.golang.org/github.com/acarl005/stripansi/@v/v0.0.0-20180116102854-5a71ef0e047d.mod # get https://proxy.golang.org/github.com/logrusorgru/aurora/@v/v2.0.3+incompatible.mod # get https://proxy.golang.org/github.com/botond-sipos/thist/@v/v1.1.0.mod # get https://proxy.golang.org/github.com/inconshreveable/mousetrap/@v/v1.1.0.mod # get https://proxy.golang.org/github.com/iafan/cwalk/@v/v0.0.0-20210125030640-586a8832a711.mod # get https://proxy.golang.org/github.com/mattn/go-colorable/@v/v0.1.13.mod # get https://proxy.golang.org/github.com/cespare/xxhash/v2/@v/v2.1.2.mod # get https://proxy.golang.org/github.com/edsrzf/mmap-go/@v/v1.2.0.mod # get https://proxy.golang.org/github.com/mattn/go-isatty/@v/v0.0.16.mod # get https://proxy.golang.org/github.com/google/uuid/@v/v1.6.0.mod # get https://proxy.golang.org/github.com/elliotwutingfeng/asciiset/@v/v0.0.0-20230602022725-51bbb787efab.mod # get https://proxy.golang.org/github.com/golang/freetype/@v/v0.0.0-20170609003504-e2365dfdc4a0.mod # get https://proxy.golang.org/github.com/cznic/sortutil/@v/v0.0.0-20181122101858-f5f958428db8.mod # get https://proxy.golang.org/github.com/klauspost/compress/@v/v1.18.0.mod # get https://proxy.golang.org/github.com/dsnet/compress/@v/v0.0.1.mod # get https://proxy.golang.org/github.com/dustin/go-humanize/@v/v1.0.1.mod # get https://proxy.golang.org/github.com/edsrzf/mmap-go/@v/v1.2.0.mod: 200 OK (0.247s) # get https://proxy.golang.org/github.com/mattn/go-isatty/@v/v0.0.16.mod: 200 OK (0.248s) # get https://proxy.golang.org/sumdb/sum.golang.org/supported # get https://proxy.golang.org/github.com/biogo/biogo/@v/v1.0.4.mod: 200 OK (0.249s) # get https://proxy.golang.org/github.com/fsnotify/fsnotify/@v/v1.5.4.mod: 200 OK (0.249s) # get https://proxy.golang.org/github.com/mattn/go-runewidth/@v/v0.0.14.mod: 200 OK (0.249s) # get https://proxy.golang.org/github.com/acarl005/stripansi/@v/v0.0.0-20180116102854-5a71ef0e047d.mod: 200 OK (0.249s) # get https://proxy.golang.org/github.com/go-fonts/liberation/@v/v0.3.0.mod: 200 OK (0.249s) # get https://proxy.golang.org/github.com/go-latex/latex/@v/v0.0.0-20230307184459-12ec69307ad9.mod: 200 OK (0.249s) # get https://proxy.golang.org/github.com/inconshreveable/mousetrap/@v/v1.1.0.mod: 200 OK (0.249s) # get https://proxy.golang.org/github.com/cespare/xxhash/v2/@v/v2.1.2.mod: 200 OK (0.248s) # get https://proxy.golang.org/github.com/go-pdf/fpdf/@v/v0.6.0.mod: 200 OK (0.293s) # get https://proxy.golang.org/github.com/biogo/hts/@v/v1.4.4.mod: 200 OK (0.293s) <snip> golang.org/x/image/vector golang.org/x/text/encoding/internal golang.org/x/text/encoding/charmap embed github.com/go-fonts/liberation/liberationmonobold github.com/go-fonts/liberation/liberationmonobolditalic github.com/go-fonts/liberation/liberationmonoitalic github.com/go-fonts/liberation/liberationmonoregular github.com/go-fonts/liberation/liberationsansbold github.com/go-fonts/liberation/liberationsansbolditalic github.com/go-fonts/liberation/liberationsansitalic github.com/go-fonts/liberation/liberationsansregular github.com/go-fonts/liberation/liberationserifbold github.com/go-fonts/liberation/liberationserifbolditalic github.com/go-fonts/liberation/liberationserifitalic github.com/go-fonts/liberation/liberationserifregular log/syslog github.com/go-latex/latex/internal/tex2unicode go/token github.com/shenwei356/go-logging github.com/go-latex/latex/token golang.org/x/image/font/sfnt github.com/go-latex/latex/ast text/scanner github.com/go-latex/latex/mtex/symbols github.com/go-latex/latex github.com/go-latex/latex/tex github.com/golang/freetype/raster golang.org/x/image/draw golang.org/x/image/font/opentype github.com/golang/freetype/truetype gonum.org/v1/plot/font gonum.org/v1/plot/font/liberation github.com/go-latex/latex/drawtex github.com/go-latex/latex/font/ttf github.com/go-latex/latex/mtex gonum.org/v1/plot/vg golang.org/x/image/font/basicfont gonum.org/v1/plot/text image/jpeg gonum.org/v1/plot/vg/draw hash/adler32 compress/zlib gonum.org/v1/plot/vg/vgeps image/png io/ioutil golang.org/x/image/ccitt golang.org/x/image/tiff/lzw golang.org/x/image/tiff crypto/rc4 git.sr.ht/~sbinet/gg crypto/internal/fips140/aes/gcm crypto/cipher internal/saferio encoding/gob crypto/internal/boring gonum.org/v1/plot/vg/vgimg crypto/sha1 encoding/base64 encoding/xml encoding/json compress/lzw image/gif math/rand github.com/ajstarks/svgo html github.com/go-pdf/fpdf gonum.org/v1/plot/vg/vgtex gonum.org/v1/plot/vg/vgsvg runtime/debug gonum.org/v1/plot/palette gonum.org/v1/plot/tools/bezier github.com/cespare/xxhash/v2 math/big github.com/dsnet/compress/internal/errors github.com/dsnet/compress github.com/dsnet/compress/internal/prefix github.com/dsnet/compress/bzip2 github.com/fsnotify/fsnotify database/sql/driver github.com/iafan/cwalk github.com/klauspost/compress/fse github.com/cznic/sortutil github.com/dustin/go-humanize crypto/rand github.com/google/uuid github.com/klauspost/compress/internal/le github.com/klauspost/compress/huff0 github.com/klauspost/compress/internal/snapref github.com/klauspost/compress/zstd/internal/xxhash gonum.org/v1/plot/vg/vgpdf github.com/klauspost/compress/flate github.com/klauspost/compress/zstd gonum.org/v1/plot gonum.org/v1/plot/plotter github.com/klauspost/pgzip github.com/logrusorgru/aurora gonum.org/v1/plot/plotutil github.com/botond-sipos/thist os/exec github.com/pkg/errors github.com/mitchellh/go-homedir crypto/sha256 github.com/ulikunitz/xz/internal/xlog hash/crc64 crypto/aes crypto/des crypto/internal/fips140/nistec/fiat github.com/ulikunitz/xz/lzma crypto/internal/fips140/edwards25519/field # github.com/ulikunitz/xz/lzma vendor/github.com/ulikunitz/xz/lzma/reader.go:33:15: cannot use 1 << 31 (untyped int constant 2147483648) as int value in assignment (overflows) crypto/internal/boring/bbig crypto/internal/impl crypto/internal/fips140/bigmod crypto/internal/fips140cache crypto/sha3 crypto/internal/fips140hash crypto/sha512 encoding/asn1 crypto/internal/fips140/edwards25519 crypto/internal/fips140/ed25519 crypto/ed25519 vendor/golang.org/x/crypto/cryptobyte crypto/internal/fips140/hkdf crypto/hmac crypto/hkdf crypto/internal/fips140/mlkem crypto/internal/fips140/tls12 crypto/internal/fips140/tls13 vendor/golang.org/x/crypto/chacha20 vendor/golang.org/x/crypto/internal/poly1305 crypto/internal/fips140/rsa vendor/golang.org/x/crypto/chacha20poly1305 crypto/fips140 crypto/tls/internal/fips140tls crypto/dsa crypto/internal/fips140/nistec crypto/x509/pkix encoding/pem crypto/rsa vendor/golang.org/x/text/transform vendor/golang.org/x/text/unicode/bidi vendor/golang.org/x/text/unicode/norm vendor/golang.org/x/text/secure/bidirule net/textproto vendor/golang.org/x/net/http2/hpack mime crypto/internal/fips140/ecdh crypto/elliptic crypto/ecdh crypto/internal/fips140/ecdsa crypto/internal/hpke vendor/golang.org/x/net/idna crypto/ecdsa mime/quotedprintable mime/multipart vendor/golang.org/x/net/http/httpguts vendor/golang.org/x/net/http/httpproxy net/http/internal net/http/internal/ascii os/user github.com/twotwotwo/sorts github.com/twotwotwo/sorts/sortutil github.com/shenwei356/util/byteutil crypto/x509 github.com/shenwei356/bio/seq github.com/edsrzf/mmap-go github.com/shenwei356/bio/seqio/fai github.com/shenwei356/bio/util index/suffixarray github.com/mattn/go-runewidth github.com/shenwei356/stable github.com/shenwei356/bwt github.com/shenwei356/bwt/fmi github.com/shenwei356/util/pathutil github.com/araddon/dateparse github.com/shenwei356/natsort gopkg.in/yaml.v2 crypto/tls github.com/shenwei356/util/stringutil encoding/csv flag github.com/spf13/pflag github.com/smallfish/simpleyaml text/template/parse text/template github.com/acarl005/stripansi github.com/vbauerster/mpb/v5/cwriter github.com/vbauerster/mpb/v5/decor github.com/vbauerster/mpb/v5 github.com/spf13/cobra os/signal net/http/httptrace net/http/internal/httpcommon net/http *** Error code 1 Stop. make: stopped in /usr/ports/biology/seqkit
