[00:00:00] =>> Building textproc/R-cran-cellranger [00:00:01] build started at 2025-11-11T23:30:55+01:00 [00:00:01] port directory: /usr/ports/textproc/R-cran-cellranger [00:00:01] package name: R-cran-cellranger-1.1.0_4 [00:00:02] building for: FreeBSD pkg.mfl.dk 14.3-RELEASE-p2 FreeBSD 14.3-RELEASE-p2 amd64 [00:00:02] maintained by: uzsolt@FreeBSD.org [00:00:02] port version: 1.1.0 [00:00:02] port revision: 4 [00:00:02] Makefile datestamp: -rw-r--r-- 1 root wheel 624 Sep 26 2024 /usr/ports/textproc/R-cran-cellranger/Makefile [00:00:02] Ports top last git commit: 71c9edb78 [00:00:02] Ports top unclean checkout: no [00:00:02] =>> Inspecting /usr/local/poudriere/data/.m/143amd64-local/ref//usr/ports/textproc/R-cran-cellranger for modifications to git checkout... no [00:00:03] Port dir unclean checkout: no [00:00:03] Poudriere version: poudriere-git-3.4.99.20251013 [00:00:03] Host OSVERSION: 1403000 [00:00:03] Jail OSVERSION: 1403000 [00:00:03] Job Id: 07 [00:00:03] Jail Id (no networking): 437 [00:00:03] Jail Id (networking) : 439 [00:00:03] [00:00:03] ---Begin Environment--- [00:00:03] SHELL=/bin/sh [00:00:03] OSVERSION=1403000 [00:00:03] UNAME_v=FreeBSD 14.3-RELEASE-p2 [00:00:03] UNAME_r=14.3-RELEASE-p2 [00:00:03] BLOCKSIZE=K [00:00:03] MAIL=/var/mail/root [00:00:03] MM_CHARSET=UTF-8 [00:00:03] LANG=C.UTF-8 [00:00:03] STATUS=1 [00:00:03] HOME=/root [00:00:03] PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin [00:00:03] MAKE_OBJDIR_CHECK_WRITABLE=0 [00:00:03] LOCALBASE=/usr/local [00:00:03] USER=root [00:00:03] POUDRIERE_NAME=poudriere-git [00:00:03] POUDRIERE_VERSION=3.4.99.20251013 [00:00:03] MASTERMNT=/usr/local/poudriere/data/.m/143amd64-local/ref [00:00:03] LC_COLLATE=C [00:00:03] POUDRIERE_BUILD_TYPE=bulk [00:00:03] PACKAGE_BUILDING=yes [00:00:03] SAVED_TERM=tmux-256color [00:00:03] OUTPUT_REDIRECTED_STDERR=4 [00:00:03] OUTPUT_REDIRECTED=1 [00:00:03] PWD=/usr/local/poudriere/data/.m/143amd64-local/07/.p [00:00:03] OUTPUT_REDIRECTED_STDOUT=3 [00:00:03] P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS [00:00:03] MASTERNAME=143amd64-local [00:00:03] OLDPWD=/usr/local/poudriere/data/.m/143amd64-local/ref/.p/pool [00:00:03] POUDRIERE_PKGNAME=poudriere-git-3.4.99.20251013 [00:00:03] PREFIX=/usr/local [00:00:03] POUDRIEREPATH=/usr/local/bin/poudriere [00:00:03] ---End Environment--- [00:00:03] [00:00:03] ---Begin Poudriere Port Flags/Env--- [00:00:03] PORT_FLAGS= [00:00:03] PKGENV= [00:00:03] FLAVOR= [00:00:03] MAKE_ARGS= [00:00:03] ---End Poudriere Port Flags/Env--- [00:00:03] [00:00:03] ---Begin OPTIONS List--- [00:00:03] ---End OPTIONS List--- [00:00:03] [00:00:03] --MAINTAINER-- [00:00:03] uzsolt@FreeBSD.org [00:00:03] --End MAINTAINER-- [00:00:03] [00:00:03] --PORTVERSION-- [00:00:03] 1.1.0 [00:00:03] --End PORTVERSION-- [00:00:03] [00:00:03] --PORTREVISION-- [00:00:03] 4 [00:00:03] --End PORTREVISION-- [00:00:03] [00:00:03] --CONFIGURE_ARGS-- [00:00:03] [00:00:03] --End CONFIGURE_ARGS-- [00:00:03] [00:00:03] --CONFIGURE_ENV-- [00:00:03] XDG_DATA_HOME=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work XDG_CACHE_HOME=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work/.cache HOME=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh [00:00:03] --End CONFIGURE_ENV-- [00:00:03] [00:00:03] --MAKE_ENV-- [00:00:03] XDG_DATA_HOME=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work XDG_CACHE_HOME=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work/.cache HOME=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/textproc/R-cran-cellranger/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/textproc/R-cran-cellranger/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" [00:00:03] --End MAKE_ENV-- [00:00:03] [00:00:03] --PLIST_SUB-- [00:00:03] R_MOD_DIR=lib/R/library/cellranger OSREL=14.3 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/cellranger" EXAMPLESDIR="share/examples/cellranger" DATADIR="share/cellranger" WWWDIR="www/cellranger" ETCDIR="etc/cellranger" [00:00:03] --End PLIST_SUB-- [00:00:03] [00:00:03] --SUB_LIST-- [00:00:03] PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/cellranger DOCSDIR=/usr/local/share/doc/cellranger EXAMPLESDIR=/usr/local/share/examples/cellranger WWWDIR=/usr/local/www/cellranger ETCDIR=/usr/local/etc/cellranger [00:00:03] --End SUB_LIST-- [00:00:03] [00:00:03] ---Begin make.conf--- [00:00:03] USE_PACKAGE_DEPENDS=yes [00:00:03] BATCH=yes [00:00:03] WRKDIRPREFIX=/wrkdirs [00:00:03] PORTSDIR=/usr/ports [00:00:03] PACKAGES=/packages [00:00:03] DISTDIR=/distfiles [00:00:03] FORCE_PACKAGE=yes [00:00:03] PACKAGE_BUILDING=yes [00:00:03] PACKAGE_BUILDING_FLAVORS=yes [00:00:03] #### /usr/local/etc/poudriere.d/make.conf #### [00:00:03] DEFAULT_VERSIONS+= ssl=openssl [00:00:03] DEFAULT_VERSIONS+= mysql=11.4m [00:00:03] DEFAULT_VERSIONS+= pgsql=17 [00:00:03] OPTIONS_SET+= LDAP [00:00:03] OPTIONS_SET+= QT6 [00:00:03] #OPTIONS_UNSET+= X11 [00:00:03] DEFAULT_VERSIONS+= php=8.3 [00:00:03] DEFAULT_VERSIONS+= samba=4.20 [00:00:03] graphics_cairo_UNSET+= XCB [00:00:03] x11-toolkits_gtk30_UNSET += ATK_BRIDGE COLORD [00:00:03] #ALLOW_UNSUPPORTED_SYSTEM= yes [00:00:03] CCACHE_DIR= /var/cache/ccache [00:00:03] WITH_CCACHE_BUILD= yes [00:00:03] #OVERLAYS+= /usr/local/share/sccache/overlay [00:00:03] #SCCACHE_DIR= /var/cache/ccache/sccache [00:00:03] WITH_CCACHE_BUILD=yes [00:00:03] CCACHE_DIR=/root/.ccache [00:00:03] #### Misc Poudriere #### [00:00:03] .include "/etc/make.conf.ports_env" [00:00:03] GID=0 [00:00:03] UID=0 [00:00:03] DISABLE_MAKE_JOBS=poudriere [00:00:03] ---End make.conf--- [00:00:03] --Resource limits-- [00:00:03] cpu time (seconds, -t) unlimited [00:00:03] file size (512-blocks, -f) unlimited [00:00:03] data seg size (kbytes, -d) 33554432 [00:00:03] stack size (kbytes, -s) 524288 [00:00:03] core file size (512-blocks, -c) unlimited [00:00:03] max memory size (kbytes, -m) unlimited [00:00:03] locked memory (kbytes, -l) unlimited [00:00:03] max user processes (-u) 58500 [00:00:03] open files (-n) 8192 [00:00:03] virtual mem size (kbytes, -v) unlimited [00:00:03] swap limit (kbytes, -w) unlimited [00:00:03] socket buffer size (bytes, -b) unlimited [00:00:03] pseudo-terminals (-p) unlimited [00:00:03] kqueues (-k) unlimited [00:00:03] umtx shared locks (-o) unlimited [00:00:03] pipebuf (-y) unlimited [00:00:03] --End resource limits-- [00:00:03] =================================================== [00:00:03] ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 [00:00:04] ===> License MIT accepted by the user [00:00:04] =========================================================================== [00:00:04] =================================================== [00:00:04] ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 [00:00:04] ===> R-cran-cellranger-1.1.0_4 depends on file: /usr/local/sbin/pkg - not found [00:00:04] ===> Installing existing package /packages/All/pkg-2.4.2_1.pkg [00:00:10] [pkg.mfl.dk] Installing pkg-2.4.2_1... [00:00:10] [pkg.mfl.dk] Extracting pkg-2.4.2_1: .......... done [00:00:47] ===> R-cran-cellranger-1.1.0_4 depends on file: /usr/local/sbin/pkg - found [00:00:47] ===> Returning to build of R-cran-cellranger-1.1.0_4 [00:00:47] =========================================================================== [00:00:48] =================================================== [00:00:48] ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 [00:00:51] =========================================================================== [00:00:53] =================================================== [00:00:53] ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 [00:00:54] ===> License MIT accepted by the user [00:00:56] => cellranger_1.1.0.tar.gz doesn't seem to exist in /portdistfiles. [00:00:56] => Attempting to fetch https://cloud.r-project.org/src/contrib/cellranger_1.1.0.tar.gz [00:01:01] cellranger_1.1.0.tar.gz 62 kB 239 MBps 00s [00:01:02] ===> Fetching all distfiles required by R-cran-cellranger-1.1.0_4 for building [00:01:02] =========================================================================== [00:01:02] =================================================== [00:01:02] ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 [00:01:02] ===> License MIT accepted by the user [00:01:02] ===> Fetching all distfiles required by R-cran-cellranger-1.1.0_4 for building [00:01:03] => SHA256 Checksum OK for cellranger_1.1.0.tar.gz. [00:01:03] =========================================================================== [00:01:03] =================================================== [00:01:03] ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 [00:01:03] =========================================================================== [00:01:03] =================================================== [00:01:03] ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 [00:01:03] ===> License MIT accepted by the user [00:01:03] ===> Fetching all distfiles required by R-cran-cellranger-1.1.0_4 for building [00:01:03] ===> Extracting for R-cran-cellranger-1.1.0_4 [00:01:03] => SHA256 Checksum OK for cellranger_1.1.0.tar.gz. [00:01:05] =========================================================================== [00:01:05] =================================================== [00:01:05] ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 [00:01:05] =========================================================================== [00:01:05] =================================================== [00:01:05] ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 [00:01:05] ===> Patching for R-cran-cellranger-1.1.0_4 [00:01:05] =========================================================================== [00:01:05] =================================================== [00:01:05] ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 [00:01:05] ===> R-cran-cellranger-1.1.0_4 depends on file: /usr/local/bin/R - not found [00:01:05] ===> Installing existing package /packages/All/R-4.5.2.pkg [00:01:16] [pkg.mfl.dk] Installing R-4.5.2... [00:01:16] [pkg.mfl.dk] `-- Installing cairo-1.18.2,3... [00:01:16] [pkg.mfl.dk] | `-- Installing fontconfig-2.15.0_3,1... [00:01:16] [pkg.mfl.dk] | | `-- Installing expat-2.7.3... [00:01:17] [pkg.mfl.dk] | | `-- Extracting expat-2.7.3: .......... done [00:01:20] [pkg.mfl.dk] | | `-- Installing freetype2-2.14.1... [00:01:20] [pkg.mfl.dk] | | `-- Installing brotli-1.1.0,1... [00:01:20] [pkg.mfl.dk] | | `-- Extracting brotli-1.1.0,1: .......... done [00:01:27] [pkg.mfl.dk] | | `-- Installing png-1.6.50... [00:01:27] [pkg.mfl.dk] | | `-- Extracting png-1.6.50: .......... done [00:01:31] [pkg.mfl.dk] | | `-- Extracting freetype2-2.14.1: .......... done [00:01:35] [pkg.mfl.dk] | `-- Extracting fontconfig-2.15.0_3,1: .......... done [00:01:42] [pkg.mfl.dk] | `-- Installing gettext-runtime-0.23.1... [00:01:43] [pkg.mfl.dk] | | `-- Installing indexinfo-0.3.1_1... [00:01:43] [pkg.mfl.dk] | | `-- Extracting indexinfo-0.3.1_1: .... done [00:01:43] [pkg.mfl.dk] | `-- Extracting gettext-runtime-0.23.1: .......... done [00:01:44] [pkg.mfl.dk] | `-- Installing glib-2.84.1_3,2... [00:01:45] [pkg.mfl.dk] | | `-- Installing libffi-3.5.1... [00:01:45] [pkg.mfl.dk] | | `-- Extracting libffi-3.5.1: .......... done [00:01:45] [pkg.mfl.dk] | | `-- Installing libiconv-1.18_1... [00:01:45] [pkg.mfl.dk] | | `-- Extracting libiconv-1.18_1: .......... done [00:01:45] [pkg.mfl.dk] | | `-- Installing libinotify-20240724_3... [00:01:45] [pkg.mfl.dk] | | `-- Extracting libinotify-20240724_3: .......... done [00:01:46] [pkg.mfl.dk] | | `-- Installing pcre2-10.46... [00:01:46] [pkg.mfl.dk] | | `-- Extracting pcre2-10.46: .......... done [00:01:49] [pkg.mfl.dk] | | `-- Installing py311-packaging-25.0... [00:01:49] [pkg.mfl.dk] | | `-- Installing python311-3.11.14... [00:01:50] [pkg.mfl.dk] | | | `-- Installing mpdecimal-4.0.1... [00:01:50] [pkg.mfl.dk] | | | `-- Extracting mpdecimal-4.0.1: .......... done [00:01:51] [pkg.mfl.dk] | | | `-- Installing openssl-3.0.18,1... [00:01:51] [pkg.mfl.dk] | | | `-- Extracting openssl-3.0.18,1: .......... done [00:02:39] [pkg.mfl.dk] | | | `-- Installing readline-8.3.1... [00:02:39] [pkg.mfl.dk] | | | `-- Extracting readline-8.3.1: .......... done [00:02:40] [pkg.mfl.dk] | | `-- Extracting python311-3.11.14: .......... done [00:03:05] [pkg.mfl.dk] | | `-- Extracting py311-packaging-25.0: .......... done [00:03:10] [pkg.mfl.dk] | `-- Extracting glib-2.84.1_3,2: .......... done [00:03:12] [pkg.mfl.dk] | `-- Installing libX11-1.8.12,1... [00:03:15] [pkg.mfl.dk] | | `-- Installing libxcb-1.17.0... [00:03:15] [pkg.mfl.dk] | | `-- Installing libXau-1.0.12... [00:03:20] [pkg.mfl.dk] | | `-- Extracting libXau-1.0.12: .......... done [00:03:28] [pkg.mfl.dk] | | `-- Installing libXdmcp-1.1.5... [00:03:29] [pkg.mfl.dk] | | | `-- Installing xorgproto-2024.1... [00:03:29] [pkg.mfl.dk] | | | `-- Extracting xorgproto-2024.1: .......... done [00:03:30] [pkg.mfl.dk] | | `-- Extracting libXdmcp-1.1.5: ......... done [00:03:40] [pkg.mfl.dk] | | `-- Extracting libxcb-1.17.0: .......... done [00:03:43] [pkg.mfl.dk] | `-- Extracting libX11-1.8.12,1: .......... done [00:03:48] [pkg.mfl.dk] | `-- Installing libXext-1.3.6,1... [00:03:48] [pkg.mfl.dk] | `-- Extracting libXext-1.3.6,1: .......... done [00:03:48] [pkg.mfl.dk] | `-- Installing libXrender-0.9.12... [00:03:48] [pkg.mfl.dk] | `-- Extracting libXrender-0.9.12: .......... done [00:03:48] [pkg.mfl.dk] | `-- Installing lzo2-2.10_1... [00:03:48] [pkg.mfl.dk] | `-- Extracting lzo2-2.10_1: .......... done [00:03:49] [pkg.mfl.dk] | `-- Installing pixman-0.46.2... [00:03:49] [pkg.mfl.dk] | `-- Extracting pixman-0.46.2: ......... done [00:03:49] [pkg.mfl.dk] `-- Extracting cairo-1.18.2,3: .......... done [00:03:49] [pkg.mfl.dk] `-- Installing cmake-core-3.31.9... [00:03:50] [pkg.mfl.dk] | `-- Installing jsoncpp-1.9.6_1... [00:03:50] [pkg.mfl.dk] | `-- Extracting jsoncpp-1.9.6_1: .......... done [00:03:51] [pkg.mfl.dk] | `-- Installing libidn2-2.3.8... [00:03:52] [pkg.mfl.dk] | | `-- Installing libunistring-1.4.1... [00:03:52] [pkg.mfl.dk] | | `-- Extracting libunistring-1.4.1: .......... done [00:04:01] [pkg.mfl.dk] | `-- Extracting libidn2-2.3.8: .......... done [00:04:05] [pkg.mfl.dk] | `-- Installing libuv-1.51.0... [00:04:06] [pkg.mfl.dk] | `-- Extracting libuv-1.51.0: .......... done [00:04:12] [pkg.mfl.dk] | `-- Installing rhash-1.4.4_1... [00:04:16] [pkg.mfl.dk] | `-- Extracting rhash-1.4.4_1: .......... done [00:04:58] [pkg.mfl.dk] `-- Extracting cmake-core-3.31.9: .......... done [00:05:00] [pkg.mfl.dk] `-- Installing curl-8.17.0... [00:05:01] [pkg.mfl.dk] | `-- Installing libnghttp2-1.68.0... [00:05:01] [pkg.mfl.dk] | `-- Extracting libnghttp2-1.68.0: .......... done [00:05:01] [pkg.mfl.dk] | `-- Installing libpsl-0.21.5_2... [00:05:02] [pkg.mfl.dk] | `-- Extracting libpsl-0.21.5_2: .......... done [00:05:02] [pkg.mfl.dk] | `-- Installing libssh2-1.11.1,3... [00:05:16] [pkg.mfl.dk] | `-- Extracting libssh2-1.11.1,3: .......... done [00:05:20] [pkg.mfl.dk] | `-- Installing openldap26-client-2.6.10... [00:05:20] [pkg.mfl.dk] | | `-- Installing cyrus-sasl-2.1.28_5... [00:05:23] *** Added group `cyrus' (id 60) [00:05:23] *** Added user `cyrus' (id 60) [00:05:23] [pkg.mfl.dk] | | `-- Extracting cyrus-sasl-2.1.28_5: .......... done [00:05:49] [pkg.mfl.dk] | `-- Extracting openldap26-client-2.6.10: .......... done [00:06:02] [pkg.mfl.dk] | `-- Installing zstd-1.5.7... [00:06:02] [pkg.mfl.dk] | | `-- Installing liblz4-1.10.0_2,1... [00:06:02] [pkg.mfl.dk] | | `-- Extracting liblz4-1.10.0_2,1: .......... done [00:06:03] [pkg.mfl.dk] | `-- Extracting zstd-1.5.7: .......... done [00:06:04] [pkg.mfl.dk] `-- Extracting curl-8.17.0: .......... done [00:06:06] [pkg.mfl.dk] `-- Installing gcc13-13.3.0_3... [00:06:06] [pkg.mfl.dk] | `-- Installing binutils-2.44,1... [00:06:06] [pkg.mfl.dk] | `-- Extracting binutils-2.44,1: .......... done [00:06:12] [pkg.mfl.dk] | `-- Installing gmp-6.3.0... [00:06:12] [pkg.mfl.dk] | `-- Extracting gmp-6.3.0: .......... done [00:06:12] [pkg.mfl.dk] | `-- Installing mpc-1.3.1_1... [00:06:12] [pkg.mfl.dk] | | `-- Installing mpfr-4.2.2,1... [00:06:12] [pkg.mfl.dk] | | `-- Extracting mpfr-4.2.2,1: .......... done [00:06:12] [pkg.mfl.dk] | `-- Extracting mpc-1.3.1_1: ......... done [00:06:12] [pkg.mfl.dk] `-- Extracting gcc13-13.3.0_3: .......... done [00:07:00] [pkg.mfl.dk] `-- Installing ghostscript10-10.06.0... [00:07:01] [pkg.mfl.dk] | `-- Installing cups-2.4.14... [00:07:01] [pkg.mfl.dk] | | `-- Installing avahi-app-0.8_6... [00:07:02] [pkg.mfl.dk] | | `-- Installing dbus-1.16.2_4,1... [00:07:03] [pkg.mfl.dk] | | | `-- Installing libICE-1.1.2,1... [00:07:05] [pkg.mfl.dk] | | | `-- Extracting libICE-1.1.2,1: .......... done [00:07:06] [pkg.mfl.dk] | | | `-- Installing libSM-1.2.6,1... [00:07:06] [pkg.mfl.dk] | | | `-- Extracting libSM-1.2.6,1: .......... done [00:07:07] [pkg.mfl.dk] | | | `-- Installing libxml2-2.14.6... [00:07:07] [pkg.mfl.dk] | | | `-- Extracting libxml2-2.14.6: .......... done [00:07:09] ===> Creating groups [00:07:10] Creating group 'messagebus' with gid '556' [00:07:10] ===> Creating users [00:07:11] Creating user 'messagebus' with uid '556' [00:07:15] [pkg.mfl.dk] | | `-- Extracting dbus-1.16.2_4,1: ......... done [00:07:35] [pkg.mfl.dk] | | `-- Installing dbus-glib-0.114... [00:07:36] [pkg.mfl.dk] | | `-- Extracting dbus-glib-0.114: .......... done [00:07:37] [pkg.mfl.dk] | | `-- Installing gdbm-1.26... [00:07:38] [pkg.mfl.dk] | | `-- Extracting gdbm-1.26: .......... done [00:07:43] [pkg.mfl.dk] | | `-- Installing gnome_subr-1.0... [00:07:43] [pkg.mfl.dk] | | `-- Extracting gnome_subr-1.0: .... done [00:07:44] [pkg.mfl.dk] | | `-- Installing libdaemon-0.14_1... [00:07:44] [pkg.mfl.dk] | | `-- Extracting libdaemon-0.14_1: .......... done [00:07:44] [pkg.mfl.dk] | | `-- Installing libevent-2.1.12... [00:07:44] [pkg.mfl.dk] | | `-- Extracting libevent-2.1.12: .......... done [00:07:47] ===> Creating groups [00:07:47] Creating group 'avahi' with gid '558' [00:07:48] ===> Creating users [00:07:48] Creating user 'avahi' with uid '558' [00:07:50] [pkg.mfl.dk] | | `-- Extracting avahi-app-0.8_6: .......... done [00:07:57] [pkg.mfl.dk] | | `-- Installing gnutls-3.8.10... [00:07:58] [pkg.mfl.dk] | | `-- Installing libtasn1-4.20.0_1... [00:08:08] [pkg.mfl.dk] | | `-- Extracting libtasn1-4.20.0_1: .......... done [00:08:14] [pkg.mfl.dk] | | `-- Installing nettle-3.10.2... [00:08:14] [pkg.mfl.dk] | | `-- Extracting nettle-3.10.2: .......... done [00:08:15] [pkg.mfl.dk] | | `-- Installing p11-kit-0.25.10... [00:08:15] [pkg.mfl.dk] | | `-- Extracting p11-kit-0.25.10: .......... done [00:08:23] [pkg.mfl.dk] | | `-- Extracting gnutls-3.8.10: .......... done [00:08:24] [pkg.mfl.dk] | | `-- Installing libpaper-1.1.28_1... [00:08:24] [pkg.mfl.dk] | | `-- Extracting libpaper-1.1.28_1: .......... done [00:08:27] ===> Creating groups [00:08:27] Creating group 'cups' with gid '193' [00:08:27] ===> Creating users [00:08:28] Creating user 'cups' with uid '193' [00:08:28] [pkg.mfl.dk] | `-- Extracting cups-2.4.14: .......... done [00:08:54] [pkg.mfl.dk] | `-- Installing jbig2dec-0.20_1... [00:08:55] [pkg.mfl.dk] | `-- Extracting jbig2dec-0.20_1: .......... done [00:09:02] [pkg.mfl.dk] | `-- Installing jpeg-turbo-3.1.2... [00:09:02] [pkg.mfl.dk] | `-- Extracting jpeg-turbo-3.1.2: .......... done [00:09:05] [pkg.mfl.dk] | `-- Installing lcms2-2.17... [00:09:06] [pkg.mfl.dk] | | `-- Installing tiff-4.7.1... [00:09:08] [pkg.mfl.dk] | | `-- Installing jbigkit-2.1_3... [00:09:08] [pkg.mfl.dk] | | `-- Extracting jbigkit-2.1_3: .......... done [00:09:08] [pkg.mfl.dk] | | `-- Installing lerc-4.0.0... [00:09:08] [pkg.mfl.dk] | | `-- Extracting lerc-4.0.0: ........ done [00:09:10] [pkg.mfl.dk] | | `-- Installing libdeflate-1.24... [00:09:10] [pkg.mfl.dk] | | `-- Extracting libdeflate-1.24: .......... done [00:09:20] [pkg.mfl.dk] | | `-- Extracting tiff-4.7.1: .......... done [00:09:44] [pkg.mfl.dk] | `-- Extracting lcms2-2.17: .......... done [00:09:45] [pkg.mfl.dk] | `-- Installing libXt-1.3.0,1... [00:09:58] [pkg.mfl.dk] | `-- Extracting libXt-1.3.0,1: .......... done [00:09:59] [pkg.mfl.dk] | `-- Installing libidn-1.43... [00:10:04] [pkg.mfl.dk] | `-- Extracting libidn-1.43: .......... done [00:10:14] [pkg.mfl.dk] | `-- Installing openjpeg-2.5.4... [00:10:18] [pkg.mfl.dk] | `-- Extracting openjpeg-2.5.4: .......... done [00:10:28] [pkg.mfl.dk] | `-- Installing poppler-data-0.4.12... [00:10:28] [pkg.mfl.dk] | `-- Extracting poppler-data-0.4.12: .......... done [00:10:32] [pkg.mfl.dk] | `-- Installing urw-base35-fonts-20200910... [00:10:32] [pkg.mfl.dk] | | `-- Installing mkfontscale-1.2.3... [00:10:32] [pkg.mfl.dk] | | `-- Installing libfontenc-1.1.8... [00:10:32] [pkg.mfl.dk] | | `-- Extracting libfontenc-1.1.8: ......... done [00:10:41] [pkg.mfl.dk] | | `-- Extracting mkfontscale-1.2.3: ....... done [00:10:41] [pkg.mfl.dk] | `-- Extracting urw-base35-fonts-20200910: .......... done [00:10:46] [pkg.mfl.dk] `-- Extracting ghostscript10-10.06.0: .......... done [00:10:49] [pkg.mfl.dk] `-- Installing gmake-4.4.1... [00:10:55] [pkg.mfl.dk] `-- Extracting gmake-4.4.1: .......... done [00:11:02] [pkg.mfl.dk] `-- Installing harfbuzz-10.3.0... [00:11:02] [pkg.mfl.dk] | `-- Installing graphite2-1.3.14... [00:11:02] [pkg.mfl.dk] | `-- Extracting graphite2-1.3.14: .......... done [00:11:02] [pkg.mfl.dk] `-- Extracting harfbuzz-10.3.0: .......... done [00:11:03] [pkg.mfl.dk] `-- Installing icu-76.1,1... [00:11:03] [pkg.mfl.dk] `-- Extracting icu-76.1,1: .......... done [00:11:17] [pkg.mfl.dk] `-- Installing libXScrnSaver-1.2.4_1... [00:11:21] [pkg.mfl.dk] `-- Extracting libXScrnSaver-1.2.4_1: .......... done [00:11:28] [pkg.mfl.dk] `-- Installing libXmu-1.1.4,1... [00:11:28] [pkg.mfl.dk] `-- Extracting libXmu-1.1.4,1: .......... done [00:11:29] [pkg.mfl.dk] `-- Installing pango-1.56.4... [00:11:29] [pkg.mfl.dk] | `-- Installing fribidi-1.0.16... [00:11:35] [pkg.mfl.dk] | `-- Extracting fribidi-1.0.16: .......... done [00:11:37] [pkg.mfl.dk] | `-- Installing libXft-2.3.8... [00:11:38] [pkg.mfl.dk] | `-- Extracting libXft-2.3.8: .......... done [00:11:38] [pkg.mfl.dk] | `-- Installing libthai-0.1.29_1... [00:11:38] [pkg.mfl.dk] | | `-- Installing libdatrie-0.2.13_2... [00:11:39] [pkg.mfl.dk] | | `-- Extracting libdatrie-0.2.13_2: .......... done [00:11:39] [pkg.mfl.dk] | `-- Extracting libthai-0.1.29_1: .......... done [00:11:39] [pkg.mfl.dk] `-- Extracting pango-1.56.4: .......... done [00:11:42] [pkg.mfl.dk] `-- Installing tcl86-8.6.17... [00:12:19] [pkg.mfl.dk] `-- Extracting tcl86-8.6.17: .......... done [00:12:29] [pkg.mfl.dk] `-- Installing tk86-8.6.17... [00:12:29] [pkg.mfl.dk] `-- Extracting tk86-8.6.17: .......... done [00:12:33] [pkg.mfl.dk] Extracting R-4.5.2: .......... done [00:12:52] ==> Running trigger: gio-modules.ucl [00:12:52] Generating GIO modules cache [00:12:57] ==> Running trigger: glib-schemas.ucl [00:12:57] Compiling glib schemas [00:12:59] No schema files found: doing nothing. [00:12:59] ==> Running trigger: fontconfig.ucl [00:12:59] Running fc-cache to build fontconfig cache... [00:13:11] ===== [00:13:11] Message from freetype2-2.14.1: [00:13:11] [00:13:11] -- [00:13:11] The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as [00:13:11] the default, emulating a modern version of ClearType. This change inevitably [00:13:11] leads to different rendering results, and you might change port's options to [00:13:11] adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment [00:13:11] variable). [00:13:11] [00:13:11] The environment variable "FREETYPE_PROPERTIES" can be used to control the [00:13:11] driver properties. Example: [00:13:11] [00:13:11] FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ [00:13:11] cff:no-stem-darkening=1 \ [00:13:11] autofitter:warping=1 [00:13:11] [00:13:11] This allows to select, say, the subpixel hinting mode at runtime for a given [00:13:11] application. [00:13:11] [00:13:11] If LONG_PCF_NAMES port's option was enabled, the PCF family names may include [00:13:11] the foundry and information whether they contain wide characters. For example, [00:13:11] "Sony Fixed" or "Misc Fixed Wide", instead of "Fixed". This can be disabled at [00:13:11] run time with using pcf:no-long-family-names property, if needed. Example: [00:13:11] [00:13:11] FREETYPE_PROPERTIES=pcf:no-long-family-names=1 [00:13:11] [00:13:11] How to recreate fontconfig cache with using such environment variable, [00:13:11] if needed: [00:13:11] # env FREETYPE_PROPERTIES=pcf:no-long-family-names=1 fc-cache -fsv [00:13:11] [00:13:11] The controllable properties are listed in the section "Controlling FreeType [00:13:11] Modules" in the reference's table of contents [00:13:11] (/usr/local/share/doc/freetype2/reference/index.html, if documentation was installed). [00:13:11] ===== [00:13:11] Message from libinotify-20240724_3: [00:13:11] [00:13:11] -- [00:13:11] You might want to consider increasing the kern.maxfiles tunable if you plan [00:13:11] to use this library for applications that need to monitor activity of a lot [00:13:11] of files. [00:13:11] ===== [00:13:11] Message from python311-3.11.14: [00:13:11] [00:13:11] -- [00:13:11] Note that some standard Python modules are provided as separate ports [00:13:11] as they require additional dependencies. They are available as: [00:13:11] [00:13:11] py311-gdbm databases/py-gdbm@py311 [00:13:11] py311-sqlite3 databases/py-sqlite3@py311 [00:13:11] py311-tkinter x11-toolkits/py-tkinter@py311 [00:13:11] ===== [00:13:11] Message from cyrus-sasl-2.1.28_5: [00:13:11] [00:13:11] -- [00:13:11] You can use sasldb2 for authentication, to add users use: [00:13:11] [00:13:11] saslpasswd2 -c username [00:13:11] [00:13:11] If you want to enable SMTP AUTH with the system Sendmail, read [00:13:11] Sendmail.README [00:13:11] [00:13:11] NOTE: This port has been compiled with a default pwcheck_method of [00:13:11] auxprop. If you want to authenticate your user by /etc/passwd, [00:13:11] PAM or LDAP, install ports/security/cyrus-sasl2-saslauthd and [00:13:11] set sasl_pwcheck_method to saslauthd after installing the [00:13:11] Cyrus-IMAPd 2.X port. You should also check the [00:13:11] /usr/local/lib/sasl2/*.conf files for the correct [00:13:11] pwcheck_method. [00:13:11] If you want to use GSSAPI mechanism, install [00:13:11] ports/security/cyrus-sasl2-gssapi. [00:13:11] If you want to use SRP mechanism, install [00:13:11] ports/security/cyrus-sasl2-srp. [00:13:11] If you want to use LDAP auxprop plugin, install [00:13:11] ports/security/cyrus-sasl2-ldapdb. [00:13:11] ===== [00:13:11] Message from openldap26-client-2.6.10: [00:13:11] [00:13:11] -- [00:13:11] The OpenLDAP client package has been successfully installed. [00:13:11] [00:13:11] Edit [00:13:11] /usr/local/etc/openldap/ldap.conf [00:13:11] to change the system-wide client defaults. [00:13:11] [00:13:11] Try `man ldap.conf' and visit the OpenLDAP FAQ-O-Matic at [00:13:11] http://www.OpenLDAP.org/faq/index.cgi?file=3 [00:13:11] for more information. [00:13:11] ===== [00:13:11] Message from gcc13-13.3.0_3: [00:13:11] [00:13:11] -- [00:13:11] To ensure binaries built with this toolchain find appropriate versions [00:13:11] of the necessary run-time libraries, you may want to link using [00:13:11] [00:13:11] -Wl,-rpath=/usr/local/lib/gcc13 [00:13:11] [00:13:11] For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens [00:13:11] transparently. [00:13:11] ===== [00:13:11] Message from ghostscript10-10.06.0: [00:13:11] [00:13:11] -- [00:13:11] This package installs a script named dvipdf that depends on dvips. If you [00:13:11] want to use this script you need to install print/tex-dvipsk. [00:13:11] ===> R-cran-cellranger-1.1.0_4 depends on file: /usr/local/bin/R - found [00:13:11] ===> Returning to build of R-cran-cellranger-1.1.0_4 [00:13:11] =========================================================================== [00:13:12] =================================================== [00:13:12] ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 [00:13:14] =========================================================================== [00:13:14] =================================================== [00:13:14] ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 [00:13:15] ===> Configuring for R-cran-cellranger-1.1.0_4 [00:13:16] =========================================================================== [00:13:16] =================================================== [00:13:16] ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 [00:13:16] =========================================================================== [00:13:16] =================================================== [00:13:16] ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 [00:13:17] ===> R-cran-cellranger-1.1.0_4 depends on package: R-cran-rematch>0 - not found [00:13:17] ===> Installing existing package /packages/All/R-cran-rematch-2.0.0.pkg [00:13:18] [pkg.mfl.dk] Installing R-cran-rematch-2.0.0... [00:13:21] [pkg.mfl.dk] Extracting R-cran-rematch-2.0.0: .......... done [00:13:21] ===> R-cran-cellranger-1.1.0_4 depends on package: R-cran-rematch>0 - found [00:13:21] ===> Returning to build of R-cran-cellranger-1.1.0_4 [00:13:21] ===> R-cran-cellranger-1.1.0_4 depends on package: R-cran-tibble>0 - not found [00:13:21] ===> Installing existing package /packages/All/R-cran-tibble-3.3.0.pkg [00:13:22] [pkg.mfl.dk] Installing R-cran-tibble-3.3.0... [00:13:22] [pkg.mfl.dk] `-- Installing R-cran-cli-3.6.5... [00:13:22] [pkg.mfl.dk] `-- Extracting R-cran-cli-3.6.5: .......... done [00:13:23] [pkg.mfl.dk] `-- Installing R-cran-lifecycle-1.0.4... [00:13:24] [pkg.mfl.dk] | `-- Installing R-cran-glue-1.8.0... [00:13:24] [pkg.mfl.dk] | `-- Extracting R-cran-glue-1.8.0: .......... done [00:13:24] [pkg.mfl.dk] | `-- Installing R-cran-rlang-1.1.6... [00:13:24] [pkg.mfl.dk] | `-- Extracting R-cran-rlang-1.1.6: .......... done [00:13:24] [pkg.mfl.dk] `-- Extracting R-cran-lifecycle-1.0.4: .......... done [00:13:24] [pkg.mfl.dk] `-- Installing R-cran-magrittr-2.0.4... [00:13:24] [pkg.mfl.dk] `-- Extracting R-cran-magrittr-2.0.4: .......... done [00:13:25] [pkg.mfl.dk] `-- Installing R-cran-pillar-1.11.1... [00:13:25] [pkg.mfl.dk] | `-- Installing R-cran-utf8-1.2.6... [00:13:25] [pkg.mfl.dk] | `-- Extracting R-cran-utf8-1.2.6: .......... done [00:13:26] [pkg.mfl.dk] | `-- Installing R-cran-vctrs-0.6.5... [00:13:26] [pkg.mfl.dk] | `-- Extracting R-cran-vctrs-0.6.5: .......... done [00:13:26] [pkg.mfl.dk] `-- Extracting R-cran-pillar-1.11.1: .......... done [00:13:26] [pkg.mfl.dk] `-- Installing R-cran-pkgconfig-2.0.3_2... [00:13:26] [pkg.mfl.dk] `-- Extracting R-cran-pkgconfig-2.0.3_2: .......... done [00:13:26] [pkg.mfl.dk] Extracting R-cran-tibble-3.3.0: .......... done [00:13:27] ===> R-cran-cellranger-1.1.0_4 depends on package: R-cran-tibble>0 - found [00:13:27] ===> Returning to build of R-cran-cellranger-1.1.0_4 [00:13:27] ===> R-cran-cellranger-1.1.0_4 depends on file: /usr/local/bin/R - found [00:13:27] =========================================================================== [00:13:27] =================================================== [00:13:27] ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 [00:13:28] ===> Staging for R-cran-cellranger-1.1.0_4 [00:13:28] ===> Generating temporary packing list [00:14:00] * installing *source* package 'cellranger' ... [00:14:00] ** this is package 'cellranger' version '1.1.0' [00:14:03] ** package 'cellranger' successfully unpacked and MD5 sums checked [00:14:03] ** using staged installation [00:14:04] ** R [00:14:05] ** inst [00:14:05] ** tests [00:14:05] ** byte-compile and prepare package for lazy loading [00:14:25] ** help [00:14:26] *** installing help indices [00:14:27] ** building package indices [00:14:42] ** installing vignettes [00:14:42] ** testing if installed package can be loaded from temporary location [00:14:52] ** testing if installed package can be loaded from final location [00:14:53] ** testing if installed package keeps a record of temporary installation path [00:14:53] * DONE (cellranger) [00:14:53] ====> Compressing man pages (compress-man) [00:14:55] =========================================================================== [00:14:56] =================================================== [00:14:56] ===== env: 'PKG_NOTES=ports_top_git_hash ports_top_checkout_unclean port_checkout_unclean' 'PKG_NOTE_ports_top_git_hash=71c9edb78' 'PKG_NOTE_ports_top_checkout_unclean=no' 'PKG_NOTE_port_checkout_unclean=no' NO_DEPENDS=yes USER=root UID=0 GID=0 [00:14:57] ===> Building packages for R-cran-cellranger-1.1.0_4 [00:14:59] ===> Building R-cran-cellranger-1.1.0_4 [00:15:06] =========================================================================== [00:15:10] =>> Cleaning up wrkdir [00:15:10] ===> Cleaning for R-cran-cellranger-1.1.0_4 [00:15:20] build of textproc/R-cran-cellranger | R-cran-cellranger-1.1.0_4 ended at 2025-11-11T23:46:13+01:00 [00:15:20] build time: 00:16:06