[00:00:00] ====>> Creating the reference jail... done [00:00:03] ====>> Mounting system devices for 93a-default [00:00:04] ====>> Mounting ports/packages/distfiles [00:00:04] ====>> Stashing existing package repository [00:00:04] ====>> Mounting packages from: /pou/data/packages/93a-default [00:00:04] ====>> Copying /var/db/ports from: /usr/local/etc/poudriere.d/options /etc/resolv.conf -> /pou/data/.m/93a-default/ref/etc/resolv.conf [00:00:04] ====>> Starting jail 93a-default [00:00:05] ====>> Logs: /pou/data/logs/bulk/93a-default/2016-07-26_20h58m27s [00:00:05] ====>> Loading MOVED [00:00:05] ====>> Calculating ports order and dependencies [00:00:10] ====>> Sanity checking the repository [00:00:10] ====>> Checking packages for incremental rebuild needed [00:00:17] ====>> Deleting stale symlinks [00:00:17] ====>> Deleting empty directories [00:00:17] ====>> Cleaning the build queue [00:00:17] ====>> Recording filesystem state for prepkg... done [00:00:18] ====>> Committing packages to repository [00:00:18] ====>> Removing old packages [00:00:19] ====>> Building with flags: [00:00:19] ====>> Removing existing /usr/local build started at Tue Jul 26 20:58:46 CEST 2016 port directory: /usr/ports/biology/seqtools building for: FreeBSD 93a-default 9.3-RELEASE-p44 FreeBSD 9.3-RELEASE-p44 amd64 maintained by: pi@FreeBSD.org Makefile ident: $FreeBSD: head/biology/seqtools/Makefile 413787 2016-04-22 16:27:25Z pi $ Poudriere version: 3.2-pre Host OSVERSION: 1200000 Jail OSVERSION: 903000 ---Begin Environment--- PKGREPOSITORY=/tmp/pkgs PACKAGES=/tmp/pkgs SHELL=/bin/csh UNAME_v=FreeBSD 9.3-RELEASE-p44 UNAME_r=9.3-RELEASE-p44 BLOCKSIZE=K MAIL=/var/mail/root STATUS=1 WARNING_WAIT=0 OPSYS=FreeBSD ARCH=amd64 SAVED_TERM=screen NO_WARNING_PKG_INSTALL_EOL=yes MASTERMNT=/pou/data/.m/93a-default/ref FORCE_PACKAGE=yes PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/usr/local/sbin:/usr/local/bin:/root/bin _JAVA_VERSION_LIST_REGEXP=1.6\|1.7\|1.8\|1.6+\|1.7+\|1.8+ POUDRIERE_BUILD_TYPE=bulk OSREL=9.3 _OSRELEASE=9.3-RELEASE-p44 PYTHONBASE=/usr/local OLDPWD=/home/pi _SMP_CPUS=8 PWD=/ HAVE_COMPAT_IA32_KERN=YES LINUX_OSRELEASE=2.6.32 MASTERNAME=93a-default SCRIPTPREFIX=/usr/local/share/poudriere _JAVA_VENDOR_LIST_REGEXP=openjdk\|oracle\|sun USER=root HOME=/root POUDRIERE_VERSION=3.2-pre SCRIPTPATH=/usr/local/share/poudriere/testport.sh TRYBROKEN=yes CONFIGURE_MAX_CMD_LEN=262144 LIBEXECPREFIX=/usr/local/libexec/poudriere LOCALBASE=/usr/local PACKAGE_BUILDING=yes _JAVA_OS_LIST_REGEXP=native\|linux DEV_WARNING_WAIT=0 OSVERSION=903000 ---End Environment--- ---Begin OPTIONS List--- ===> The following configuration options are available for seqtools-4.43.0: DOCS=on: Build and/or install documentation ===> Use 'make config' to modify these settings ---End OPTIONS List--- --CONFIGURE_ARGS-- --x-libraries=/usr/local/lib --x-includes=/usr/local/include --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PKG_CONFIG=pkgconf XDG_DATA_HOME=/wrkdirs/usr/ports/biology/seqtools/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/seqtools/work HOME=/wrkdirs/usr/ports/biology/seqtools/work TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_max_cmd_len=262144 --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/seqtools/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/seqtools/work HOME=/wrkdirs/usr/ports/biology/seqtools/work TMPDIR="/tmp" NO_PIE=yes WITHOUT_DEBUG_FILES=yes WITHOUT_KERNEL_SYMBOLS=yes SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" CC="/usr/local/bin/clang36" CFLAGS="-O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing" CPP="/usr/local/bin/clang-cpp36" CPPFLAGS="" LDFLAGS=" -L/usr/local/lib -lexecinfo -lcurl -lsqlite3 -lm -fstack-protector" LIBS="" CXX="/usr/local/bin/clang++36" CXXFLAGS="-O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing" MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 444" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- GTK2_VERSION="2.10.0" GTK3_VERSION="3.0.0" OSREL=9.3 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib DOCSDIR="share/doc/seqtools" EXAMPLESDIR="share/examples/seqtools" DATADIR="share/seqtools" WWWDIR="www/seqtools" ETCDIR="etc/seqtools" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/seqtools DOCSDIR=/usr/local/share/doc/seqtools EXAMPLESDIR=/usr/local/share/examples/seqtools WWWDIR=/usr/local/www/seqtools ETCDIR=/usr/local/etc/seqtools --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles ---End make.conf--- =================================================== ===> License GPLv3 accepted by the user ===> Found saved configuration for seqtools-4.43.0 =========================================================================== =================================================== ===> seqtools-4.43.0 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.8.7.txz [93a-default] Installing pkg-1.8.7... [93a-default] Extracting pkg-1.8.7: .......... done ===> seqtools-4.43.0 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of seqtools-4.43.0 =========================================================================== =================================================== =========================================================================== =================================================== ===> License GPLv3 accepted by the user ===> Found saved configuration for seqtools-4.43.0 ===> seqtools-4.43.0 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by seqtools-4.43.0 for building =========================================================================== =================================================== ===> License GPLv3 accepted by the user ===> Found saved configuration for seqtools-4.43.0 ===> seqtools-4.43.0 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by seqtools-4.43.0 for building => SHA256 Checksum OK for seqtools-4.43.0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License GPLv3 accepted by the user ===> Found saved configuration for seqtools-4.43.0 ===> seqtools-4.43.0 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by seqtools-4.43.0 for building ===> Extracting for seqtools-4.43.0 => SHA256 Checksum OK for seqtools-4.43.0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for seqtools-4.43.0 =========================================================================== =================================================== ===> seqtools-4.43.0 depends on file: /usr/local/bin/clang36 - not found ===> Installing existing package /packages/All/clang36-3.6.2.txz [93a-default] Installing clang36-3.6.2... [93a-default] `-- Installing libedit-3.1.20150325_2,1... [93a-default] `-- Extracting libedit-3.1.20150325_2,1: .......... done [93a-default] `-- Installing llvm36-3.6.2_2... [93a-default] | `-- Installing python27-2.7.12... [93a-default] | | `-- Installing libffi-3.2.1... [93a-default] | | `-- Installing indexinfo-0.2.4... [93a-default] | | `-- Extracting indexinfo-0.2.4: .... done [93a-default] | | `-- Extracting libffi-3.2.1: .......... done [93a-default] | | `-- Installing gettext-runtime-0.19.8.1... [93a-default] | | `-- Installing libiconv-1.14_9... [93a-default] | | `-- Extracting libiconv-1.14_9: .......... done [93a-default] | | `-- Extracting gettext-runtime-0.19.8.1: .......... done [93a-default] | `-- Extracting python27-2.7.12: .......... done [93a-default] | `-- Installing libexecinfo-1.1_3... [93a-default] | `-- Extracting libexecinfo-1.1_3: ..... done [93a-default] | `-- Installing perl5-5.20.3_13... [93a-default] | `-- Extracting perl5-5.20.3_13: .......... done [93a-default] | `-- Installing gcc-4.8.5_2... [93a-default] | | `-- Installing mpc-1.0.3... [93a-default] | | `-- Installing gmp-5.1.3_3... [93a-default] | | `-- Extracting gmp-5.1.3_3: .......... done [93a-default] | | `-- Installing mpfr-3.1.4... [93a-default] | | `-- Extracting mpfr-3.1.4: .......... done [93a-default] | | `-- Extracting mpc-1.0.3: ...... done [93a-default] | | `-- Installing gcc-ecj-4.5... [93a-default] | | `-- Extracting gcc-ecj-4.5: . done [93a-default] | | `-- Installing binutils-2.25.1_3,1... [93a-default] | | `-- Extracting binutils-2.25.1_3,1: .......... done [93a-default] | `-- Extracting gcc-4.8.5_2: .......... done [93a-default] `-- Extracting llvm36-3.6.2_2: .......... done [93a-default] Extracting clang36-3.6.2: .......... done Message from python27-2.7.12: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: bsddb databases/py-bsddb gdbm databases/py-gdbm sqlite3 databases/py-sqlite3 tkinter x11-toolkits/py-tkinter =========================================================================== Message from perl5-5.20.3_13: The /usr/bin/perl symlink has been removed starting with Perl 5.20. For shebangs, you should either use: #!/usr/local/bin/perl or #!/usr/bin/env perl The first one will only work if you have a /usr/local/bin/perl, the second will work as long as perl is in PATH. Message from gcc-4.8.5_2: To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc48 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. ===> seqtools-4.43.0 depends on file: /usr/local/bin/clang36 - found ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on executable: msgfmt - not found ===> Installing existing package /packages/All/gettext-tools-0.19.8.1.txz [93a-default] Installing gettext-tools-0.19.8.1... [93a-default] Extracting gettext-tools-0.19.8.1: .......... done ===> seqtools-4.43.0 depends on executable: msgfmt - found ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on package: pkgconf>=0.9.10 - not found ===> Installing existing package /packages/All/pkgconf-1_1.txz [93a-default] Installing pkgconf-1_1... [93a-default] Extracting pkgconf-1_1: .......... done ===> seqtools-4.43.0 depends on package: pkgconf>=0.9.10 - found ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on file: /usr/local/libdata/pkgconfig/x11.pc - not found ===> Installing existing package /packages/All/libX11-1.6.3,1.txz [93a-default] Installing libX11-1.6.3,1... [93a-default] `-- Installing xproto-7.0.28... [93a-default] `-- Extracting xproto-7.0.28: .......... done [93a-default] `-- Installing kbproto-1.0.7... [93a-default] `-- Extracting kbproto-1.0.7: .......... done [93a-default] `-- Installing libXdmcp-1.1.2... [93a-default] `-- Extracting libXdmcp-1.1.2: ......... done [93a-default] `-- Installing libxcb-1.11.1... [93a-default] | `-- Installing libxml2-2.9.4... [93a-default] | `-- Extracting libxml2-2.9.4: .......... done [93a-default] | `-- Installing libpthread-stubs-0.3_6... [93a-default] | `-- Extracting libpthread-stubs-0.3_6: ..... done [93a-default] | `-- Installing libXau-1.0.8_3... [93a-default] | `-- Extracting libXau-1.0.8_3: .......... done [93a-default] `-- Extracting libxcb-1.11.1: .......... done [93a-default] Extracting libX11-1.6.3,1: .......... done ===> seqtools-4.43.0 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found ===> Returning to build of seqtools-4.43.0 =========================================================================== =================================================== ===> seqtools-4.43.0 depends on shared library: libcurl.so - not found ===> Installing existing package /packages/All/curl-7.49.1.txz [93a-default] Installing curl-7.49.1... [93a-default] `-- Installing librtmp-2.4.20151223... [93a-default] `-- Extracting librtmp-2.4.20151223: .......... done [93a-default] `-- Installing ca_root_nss-3.25... [93a-default] `-- Extracting ca_root_nss-3.25: ...... done [93a-default] `-- Installing libidn-1.31... [93a-default] `-- Extracting libidn-1.31: .......... done [93a-default] `-- Installing libssh2-1.7.0,2... [93a-default] `-- Extracting libssh2-1.7.0,2: .......... done [93a-default] Extracting curl-7.49.1: .......... done Message from ca_root_nss-3.25: ********************************* WARNING ********************************* FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. *********************************** NOTE ********************************** This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem *************************************************************************** ===> seqtools-4.43.0 depends on shared library: libcurl.so - found (/usr/local/lib/libcurl.so) ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on shared library: libsqlite3.so - not found ===> Installing existing package /packages/All/sqlite3-3.13.0_2.txz [93a-default] Installing sqlite3-3.13.0_2... [93a-default] Extracting sqlite3-3.13.0_2: .......... done ===> seqtools-4.43.0 depends on shared library: libsqlite3.so - found (/usr/local/lib/libsqlite3.so) ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on shared library: libfontconfig.so - not found ===> Installing existing package /packages/All/fontconfig-2.11.1_2,1.txz [93a-default] Installing fontconfig-2.11.1_2,1... [93a-default] `-- Installing expat-2.2.0... [93a-default] `-- Extracting expat-2.2.0: .......... done [93a-default] `-- Installing freetype2-2.6.3... [93a-default] | `-- Installing png-1.6.23... [93a-default] | `-- Extracting png-1.6.23: .......... done [93a-default] `-- Extracting freetype2-2.6.3: .......... done [93a-default] Extracting fontconfig-2.11.1_2,1: .......... done Running fc-cache to build fontconfig cache... /usr/local/share/fonts: skipping, no such directory /usr/local/lib/X11/fonts: skipping, no such directory /root/.local/share/fonts: skipping, no such directory /root/.fonts: skipping, no such directory /var/db/fontconfig: cleaning cache directory /root/.cache/fontconfig: not cleaning non-existent cache directory /root/.fontconfig: not cleaning non-existent cache directory fc-cache: succeeded ===> seqtools-4.43.0 depends on shared library: libfontconfig.so - found (/usr/local/lib/libfontconfig.so) ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on shared library: libfreetype.so - found (/usr/local/lib/libfreetype.so) ===> seqtools-4.43.0 depends on shared library: libexecinfo.so - found (/usr/local/lib/libexecinfo.so) ===> seqtools-4.43.0 depends on shared library: libintl.so - found (/usr/local/lib/libintl.so) ===> seqtools-4.43.0 depends on shared library: libatk-1.0.so - not found ===> Installing existing package /packages/All/atk-2.18.0.txz [93a-default] Installing atk-2.18.0... [93a-default] `-- Installing glib-2.46.2_2... [93a-default] | `-- Installing pcre-8.39... [93a-default] | `-- Extracting pcre-8.39: .......... done [93a-default] `-- Extracting glib-2.46.2_2: .......... done No schema files found: doing nothing. [93a-default] Extracting atk-2.18.0: .......... done ===> seqtools-4.43.0 depends on shared library: libatk-1.0.so - found (/usr/local/lib/libatk-1.0.so) ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on shared library: libcairo.so - not found ===> Installing existing package /packages/All/cairo-1.14.6,2.txz [93a-default] Installing cairo-1.14.6,2... [93a-default] `-- Installing dri2proto-2.8... [93a-default] `-- Extracting dri2proto-2.8: .... done [93a-default] `-- Installing glproto-1.4.17... [93a-default] `-- Extracting glproto-1.4.17: ...... done [93a-default] `-- Installing libXext-1.3.3_1,1... [93a-default] | `-- Installing xextproto-7.3.0... [93a-default] | `-- Extracting xextproto-7.3.0: .......... done [93a-default] `-- Extracting libXext-1.3.3_1,1: .......... done [93a-default] `-- Installing libEGL-11.2.2... [93a-default] | `-- Installing libdevq-0.0.2_1... [93a-default] | `-- Extracting libdevq-0.0.2_1: ..... done [93a-default] | `-- Installing libXdamage-1.1.4_3... [93a-default] | | `-- Installing libXfixes-5.0.1_3... [93a-default] | | `-- Installing fixesproto-5.0... [93a-default] | | `-- Extracting fixesproto-5.0: .... done [93a-default] | | `-- Extracting libXfixes-5.0.1_3: .......... done [93a-default] | | `-- Installing damageproto-1.2.1... [93a-default] | | `-- Extracting damageproto-1.2.1: .... done [93a-default] | `-- Extracting libXdamage-1.1.4_3: ...... done [93a-default] | `-- Installing libxshmfence-1.2... [93a-default] | `-- Extracting libxshmfence-1.2: ......... done [93a-default] | `-- Installing gbm-11.2.2... [93a-default] | | `-- Installing libglapi-11.2.2... [93a-default] | | `-- Installing libXvMC-1.0.9... [93a-default] | | | `-- Installing libXv-1.0.10_3,1... [93a-default] | | | `-- Installing videoproto-2.3.2... [93a-default] | | | `-- Extracting videoproto-2.3.2: ...... done [93a-default] | | | `-- Extracting libXv-1.0.10_3,1: .......... done [93a-default] | | `-- Extracting libXvMC-1.0.9: .......... done [93a-default] | | `-- Installing libdrm-2.4.66,1... [93a-default] | | | `-- Installing libpciaccess-0.13.4... [93a-default] | | | `-- Installing pciids-20160621... [93a-default] | | | `-- Extracting pciids-20160621: ..... done [93a-default] | | | `-- Extracting libpciaccess-0.13.4: ...... done [93a-default] | | `-- Extracting libdrm-2.4.66,1: .......... done [93a-default] | | `-- Extracting libglapi-11.2.2: ... done [93a-default] | `-- Extracting gbm-11.2.2: ..... done [93a-default] | `-- Installing llvm37-3.7.1_2... [93a-default] | `-- Extracting llvm37-3.7.1_2: .......... done [93a-default] `-- Extracting libEGL-11.2.2: .......... done [93a-default] `-- Installing libXrender-0.9.9... [93a-default] | `-- Installing renderproto-0.11.1... [93a-default] | `-- Extracting renderproto-0.11.1: .... done [93a-default] `-- Extracting libXrender-0.9.9: .......... done [93a-default] `-- Installing libGL-11.2.2... [93a-default] | `-- Installing libXxf86vm-1.1.4_1... [93a-default] | | `-- Installing xf86vidmodeproto-2.3.1... [93a-default] | | `-- Extracting xf86vidmodeproto-2.3.1: .... done [93a-default] | `-- Extracting libXxf86vm-1.1.4_1: .......... done [93a-default] `-- Extracting libGL-11.2.2: .......... done [93a-default] `-- Installing pixman-0.34.0... [93a-default] `-- Extracting pixman-0.34.0: .......... done [93a-default] `-- Installing xcb-util-renderutil-0.3.9_1... [93a-default] | `-- Installing xcb-util-0.4.0_1,1... [93a-default] | `-- Extracting xcb-util-0.4.0_1,1: .......... done [93a-default] `-- Extracting xcb-util-renderutil-0.3.9_1: ...... done [93a-default] Extracting cairo-1.14.6,2: .......... done ===> seqtools-4.43.0 depends on shared library: libcairo.so - found (/usr/local/lib/libcairo.so) ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on shared library: libgdk_pixbuf-2.0.so - not found ===> Installing existing package /packages/All/gdk-pixbuf2-2.32.3_1.txz [93a-default] Installing gdk-pixbuf2-2.32.3_1... [93a-default] `-- Installing jasper-1.900.1_16... [93a-default] | `-- Installing jpeg-turbo-1.4.2... [93a-default] | `-- Extracting jpeg-turbo-1.4.2: .......... done [93a-default] `-- Extracting jasper-1.900.1_16: .......... done [93a-default] `-- Installing libXt-1.1.5,1... [93a-default] | `-- Installing libSM-1.2.2_3,1... [93a-default] | | `-- Installing libICE-1.0.9_1,1... [93a-default] | | `-- Extracting libICE-1.0.9_1,1: .......... done [93a-default] | `-- Extracting libSM-1.2.2_3,1: .......... done [93a-default] `-- Extracting libXt-1.1.5,1: .......... done [93a-default] `-- Installing tiff-4.0.6_2... [93a-default] | `-- Installing jbigkit-2.1_1... [93a-default] | `-- Extracting jbigkit-2.1_1: .......... done [93a-default] `-- Extracting tiff-4.0.6_2: .......... done [93a-default] `-- Installing libXi-1.7.6,1... [93a-default] | `-- Installing inputproto-2.3.1... [93a-default] | `-- Extracting inputproto-2.3.1: ..... done [93a-default] `-- Extracting libXi-1.7.6,1: .......... done [93a-default] Extracting gdk-pixbuf2-2.32.3_1: .......... done ===> seqtools-4.43.0 depends on shared library: libgdk_pixbuf-2.0.so - found (/usr/local/lib/libgdk_pixbuf-2.0.so) ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on shared library: libglib-2.0.so - found (/usr/local/lib/libglib-2.0.so) ===> seqtools-4.43.0 depends on shared library: libgtk-x11-2.0.so - not found ===> Installing existing package /packages/All/gtk2-2.24.29_2.txz [93a-default] Installing gtk2-2.24.29_2... [93a-default] `-- Installing hicolor-icon-theme-0.15... [93a-default] `-- Extracting hicolor-icon-theme-0.15: . done [93a-default] `-- Installing gtk-update-icon-cache-2.24.29... [93a-default] | `-- Installing pango-1.38.0_1... [93a-default] | | `-- Installing encodings-1.0.4_3,1... [93a-default] | | `-- Installing font-util-1.3.1... [93a-default] | | `-- Extracting font-util-1.3.1: .......... done [93a-default] | | `-- Extracting encodings-1.0.4_3,1: .......... done [93a-default] | | `-- Installing libXft-2.3.2_1... [93a-default] | | `-- Extracting libXft-2.3.2_1: ......... done [93a-default] | | `-- Installing harfbuzz-1.2.7... [93a-default] | | `-- Installing icu-55.1,1... [93a-default] | | `-- Extracting icu-55.1,1: .......... done [93a-default] | | `-- Installing graphite2-1.3.8... [93a-default] | | `-- Extracting graphite2-1.3.8: .......... done [93a-default] | | `-- Extracting harfbuzz-1.2.7: .......... done [93a-default] | | `-- Installing xorg-fonts-truetype-7.7_1... [93a-default] | | `-- Installing font-misc-meltho-1.0.3_3... [93a-default] | | | `-- Installing mkfontdir-1.0.7... [93a-default] | | | `-- Installing mkfontscale-1.1.2... [93a-default] | | | | `-- Installing libfontenc-1.1.3... [93a-default] | | | | `-- Extracting libfontenc-1.1.3: ...... done [93a-default] | | | `-- Extracting mkfontscale-1.1.2: .. done [93a-default] | | | `-- Extracting mkfontdir-1.0.7: .. done [93a-default] | | `-- Extracting font-misc-meltho-1.0.3_3: .......... done [93a-default] | | `-- Installing font-bh-ttf-1.0.3_3... [93a-default] | | `-- Extracting font-bh-ttf-1.0.3_3: .......... done [93a-default] | | `-- Installing font-misc-ethiopic-1.0.3_3... [93a-default] | | `-- Extracting font-misc-ethiopic-1.0.3_3: ... done [93a-default] | | `-- Installing dejavu-2.35... [93a-default] | | `-- Extracting dejavu-2.35: .......... done [93a-default] | `-- Extracting pango-1.38.0_1: .......... done [93a-default] | `-- Installing libXcursor-1.1.14_3... [93a-default] | `-- Extracting libXcursor-1.1.14_3: .......... done [93a-default] | `-- Installing libXinerama-1.1.3_3,1... [93a-default] | | `-- Installing xineramaproto-1.2.1... [93a-default] | | `-- Extracting xineramaproto-1.2.1: .. done [93a-default] | `-- Extracting libXinerama-1.1.3_3,1: .......... done [93a-default] | `-- Installing libXcomposite-0.4.4_3,1... [93a-default] | | `-- Installing compositeproto-0.4.2... [93a-default] | | `-- Extracting compositeproto-0.4.2: .... done [93a-default] | `-- Extracting libXcomposite-0.4.4_3,1: .......... done [93a-default] | `-- Installing libXrandr-1.5.0... [93a-default] | | `-- Installing randrproto-1.5.0... [93a-default] | | `-- Extracting randrproto-1.5.0: .... done [93a-default] | `-- Extracting libXrandr-1.5.0: .......... done [93a-default] | `-- Installing shared-mime-info-1.5... [93a-default] | `-- Extracting shared-mime-info-1.5: .......... done [93a-default] `-- Extracting gtk-update-icon-cache-2.24.29: .... done [93a-default] `-- Installing python-2.7_2,2... [93a-default] | `-- Installing python2-2_3... [93a-default] | `-- Extracting python2-2_3: ...... done [93a-default] `-- Extracting python-2.7_2,2: ..... done [93a-default] Extracting gtk2-2.24.29_2: .......... done Message from dejavu-2.35: Make sure that the freetype module is loaded. If it is not, add the following line to the "Modules" section of your X Windows configuration file: Load "freetype" Add the following line to the "Files" section of X Windows configuration file: FontPath "/usr/local/share/fonts/dejavu/" Note: your X Windows configuration file is typically /etc/X11/XF86Config if you are using XFree86, and /etc/X11/xorg.conf if you are using X.Org. ===> seqtools-4.43.0 depends on shared library: libgtk-x11-2.0.so - found (/usr/local/lib/libgtk-x11-2.0.so) ===> Returning to build of seqtools-4.43.0 ===> seqtools-4.43.0 depends on shared library: libpango-1.0.so - found (/usr/local/lib/libpango-1.0.so) =========================================================================== ====>> Recording filesystem state for prebuild... done =================================================== ===> seqtools-4.43.0 depends on file: /usr/local/bin/clang36 - found ===> seqtools-4.43.0 depends on executable: msgfmt - found ===> seqtools-4.43.0 depends on package: pkgconf>=0.9.10 - found ===> seqtools-4.43.0 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found ===> seqtools-4.43.0 depends on shared library: libcurl.so - found (/usr/local/lib/libcurl.so) ===> seqtools-4.43.0 depends on shared library: libsqlite3.so - found (/usr/local/lib/libsqlite3.so) ===> seqtools-4.43.0 depends on shared library: libfontconfig.so - found (/usr/local/lib/libfontconfig.so) ===> seqtools-4.43.0 depends on shared library: libfreetype.so - found (/usr/local/lib/libfreetype.so) ===> seqtools-4.43.0 depends on shared library: libexecinfo.so - found (/usr/local/lib/libexecinfo.so) ===> seqtools-4.43.0 depends on shared library: libintl.so - found (/usr/local/lib/libintl.so) ===> seqtools-4.43.0 depends on shared library: libatk-1.0.so - found (/usr/local/lib/libatk-1.0.so) ===> seqtools-4.43.0 depends on shared library: libcairo.so - found (/usr/local/lib/libcairo.so) ===> seqtools-4.43.0 depends on shared library: libgdk_pixbuf-2.0.so - found (/usr/local/lib/libgdk_pixbuf-2.0.so) ===> seqtools-4.43.0 depends on shared library: libglib-2.0.so - found (/usr/local/lib/libglib-2.0.so) ===> seqtools-4.43.0 depends on shared library: libgtk-x11-2.0.so - found (/usr/local/lib/libgtk-x11-2.0.so) ===> seqtools-4.43.0 depends on shared library: libpango-1.0.so - found (/usr/local/lib/libpango-1.0.so) ===> Configuring for seqtools-4.43.0 configure: loading site script /usr/ports/Templates/config.site checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... (cached) /bin/mkdir -p checking for gawk... (cached) /usr/bin/awk checking whether make sets $(MAKE)... yes checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether /usr/local/bin/clang++36 accepts -g... yes checking for style of include used by make... GNU checking dependency style of /usr/local/bin/clang++36... gcc3 checking for gcc... /usr/local/bin/clang36 checking whether we are using the GNU C compiler... yes checking whether /usr/local/bin/clang36 accepts -g... yes checking for /usr/local/bin/clang36 option to accept ISO C89... none needed checking dependency style of /usr/local/bin/clang36... gcc3 checking how to run the C preprocessor... /usr/local/bin/clang-cpp36 checking whether ln -s works... yes checking whether make sets $(MAKE)... (cached) yes checking for ranlib... ranlib checking for glib-genmarshal... glib-genmarshal checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for egrep... (cached) /usr/bin/egrep checking for ANSI C header files... (cached) yes checking for sys/types.h... (cached) yes checking for sys/stat.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for memory.h... (cached) yes checking for strings.h... (cached) yes checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for unistd.h... (cached) yes checking for arpa/inet.h... (cached) yes checking for netdb.h... (cached) yes checking for netinet/in.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for sys/socket.h... (cached) yes checking for unistd.h... (cached) yes checking gtk.h usability... no checking gtk.h presence... no checking for gtk.h... no checking sqlite3.h usability... yes checking sqlite3.h presence... no configure: WARNING: sqlite3.h: accepted by the compiler, rejected by the preprocessor! configure: WARNING: sqlite3.h: proceeding with the compiler's result checking for sqlite3.h... yes checking for pid_t... (cached) yes checking for size_t... (cached) yes checking for vfork.h... (cached) no checking for fork... (cached) yes checking for vfork... (cached) yes checking for working fork... yes checking for working vfork... (cached) yes checking for dup2... (cached) yes checking for floor... yes checking for gethostbyname... (cached) yes checking for memset... (cached) yes checking for socket... yes checking for sqrt... yes checking for strcasecmp... (cached) yes checking for strchr... yes checking for strcspn... (cached) yes checking for strerror... (cached) yes checking for strncasecmp... (cached) yes checking for strrchr... yes checking for strstr... yes checking for strtol... (cached) yes checking for uname... (cached) yes checking pkg-config is at least version 0.9.0... yes checking for DEPS... yes checking for DEPS_SQLITE3... yes checking curl/curl.h usability... yes checking curl/curl.h presence... no configure: WARNING: curl/curl.h: accepted by the compiler, rejected by the preprocessor! configure: WARNING: curl/curl.h: proceeding with the compiler's result checking for curl/curl.h... yes checking execinfo.h usability... yes checking execinfo.h presence... no configure: WARNING: execinfo.h: accepted by the compiler, rejected by the preprocessor! configure: WARNING: execinfo.h: proceeding with the compiler's result checking for execinfo.h... yes configure: creating ./config.status config.status: creating Makefile config.status: creating blixemApp/Makefile config.status: creating dotterApp/Makefile config.status: creating belvuApp/Makefile config.status: creating seqtoolsUtils/Makefile config.status: creating doc/Makefile config.status: creating doc/User_doc/Makefile config.status: creating doc/Design_notes/Makefile config.status: creating doc/Design_notes/modules/Makefile config.status: creating examples/Makefile config.status: creating test/Makefile config.status: creating test/data/Makefile config.status: creating test/scripts/Makefile config.status: creating test/scripts/automated/Makefile config.status: creating test/scripts/automated/belvu/Makefile config.status: creating test/scripts/automated/blixem/Makefile config.status: creating test/scripts/automated/dotter/Makefile config.status: creating test/scripts/manual/Makefile config.status: creating test/scripts/manual/belvu/Makefile config.status: creating test/scripts/manual/blixem/Makefile config.status: creating test/scripts/manual/dotter/Makefile config.status: creating config.h config.status: executing depfiles commands === configuring in gbtools (/wrkdirs/usr/ports/biology/seqtools/work/seqtools-4.43.0/gbtools) configure: running /bin/sh ./configure --disable-option-checking '--prefix=/usr/local' '--x-libraries=/usr/local/lib' '--x-includes=/usr/local/include' '--localstatedir=/var' '--mandir=/usr/local/man' '--infodir=/usr/local/info/' '--build=amd64-portbld-freebsd9.3' 'build_alias=amd64-portbld-freebsd9.3' 'CXX=/usr/local/bin/clang++36' 'CXXFLAGS=-O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing' 'LDFLAGS= -L/usr/local/lib -lexecinfo -lcurl -lsqlite3 -lm -fstack-protector' 'LIBS=' 'CPPFLAGS=' 'CC=/usr/local/bin/clang36' 'CFLAGS=-O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing' 'CPP=/usr/local/bin/clang-cpp36' 'PKG_CONFIG=pkgconf' --cache-file=/dev/null --srcdir=. configure: loading site script /usr/ports/Templates/config.site checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... (cached) /bin/mkdir -p checking for gawk... (cached) /usr/bin/awk checking whether make sets $(MAKE)... yes checking build system type... amd64-portbld-freebsd9.3 checking host system type... amd64-portbld-freebsd9.3 checking for style of include used by make... GNU checking for gcc... /usr/local/bin/clang36 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether /usr/local/bin/clang36 accepts -g... yes checking for /usr/local/bin/clang36 option to accept ISO C89... none needed checking dependency style of /usr/local/bin/clang36... gcc3 checking for a sed that does not truncate output... (cached) /usr/bin/sed checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for egrep... (cached) /usr/bin/egrep checking for fgrep... (cached) /usr/bin/fgrep checking for ld used by /usr/local/bin/clang36... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... (cached) 262144 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... no checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for ar... ar checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from /usr/local/bin/clang36 object... ok checking how to run the C preprocessor... /usr/local/bin/clang-cpp36 checking for ANSI C header files... (cached) yes checking for sys/types.h... (cached) yes checking for sys/stat.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for memory.h... (cached) yes checking for strings.h... (cached) yes checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for unistd.h... (cached) yes checking for dlfcn.h... (cached) yes checking for objdir... .libs checking if /usr/local/bin/clang36 supports -fno-rtti -fno-exceptions... yes checking for /usr/local/bin/clang36 option to produce PIC... -fPIC -DPIC checking if /usr/local/bin/clang36 PIC flag -fPIC -DPIC works... yes checking if /usr/local/bin/clang36 static flag -static works... yes checking if /usr/local/bin/clang36 supports -c -o file.o... yes checking if /usr/local/bin/clang36 supports -c -o file.o... (cached) yes checking whether the /usr/local/bin/clang36 linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... freebsd9.3 ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... no checking whether to build static libraries... yes checking whether we are using the GNU C++ compiler... yes checking whether /usr/local/bin/clang++36 accepts -g... yes checking dependency style of /usr/local/bin/clang++36... gcc3 checking how to run the C++ preprocessor... /usr/local/bin/clang++36 -E checking for ld used by /usr/local/bin/clang++36... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the /usr/local/bin/clang++36 linker (/usr/bin/ld) supports shared libraries... yes checking for /usr/local/bin/clang++36 option to produce PIC... -fPIC -DPIC checking if /usr/local/bin/clang++36 PIC flag -fPIC -DPIC works... yes checking if /usr/local/bin/clang++36 static flag -static works... yes checking if /usr/local/bin/clang++36 supports -c -o file.o... yes checking if /usr/local/bin/clang++36 supports -c -o file.o... (cached) yes checking whether the /usr/local/bin/clang++36 linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... freebsd9.3 ld.so checking how to hardcode library paths into programs... immediate checking how to run the C preprocessor... /usr/local/bin/clang-cpp36 checking whether we are using the GNU C++ compiler... (cached) yes checking whether /usr/local/bin/clang++36 accepts -g... (cached) yes checking dependency style of /usr/local/bin/clang++36... (cached) gcc3 checking whether ln -s works... yes checking whether make sets $(MAKE)... (cached) yes checking for arpa/inet.h... (cached) yes checking for netdb.h... (cached) yes checking for netinet/in.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for sys/socket.h... (cached) yes checking for unistd.h... (cached) yes checking gtk.h usability... no checking gtk.h presence... no checking for gtk.h... no checking for pid_t... (cached) yes checking for size_t... (cached) yes checking for vfork.h... (cached) no checking for fork... (cached) yes checking for vfork... (cached) yes checking for working fork... yes checking for working vfork... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... (cached) yes checking for dup2... (cached) yes checking for floor... yes checking for gethostbyname... (cached) yes checking for memset... (cached) yes checking for socket... yes checking for sqrt... yes checking for strcasecmp... (cached) yes checking for strchr... yes checking for strcspn... (cached) yes checking for strerror... (cached) yes checking for strncasecmp... (cached) yes checking for strrchr... yes checking for strstr... yes checking for strtol... (cached) yes checking for uname... (cached) yes checking pkg-config is at least version 0.9.0... yes checking for DEPS... yes checking for glib-genmarshal... glib-genmarshal checking curl/curl.h usability... yes checking curl/curl.h presence... no configure: WARNING: curl/curl.h: accepted by the compiler, rejected by the preprocessor! configure: WARNING: curl/curl.h: proceeding with the compiler's result checking for curl/curl.h... yes checking execinfo.h usability... yes checking execinfo.h presence... no configure: WARNING: execinfo.h: accepted by the compiler, rejected by the preprocessor! configure: WARNING: execinfo.h: proceeding with the compiler's result checking for execinfo.h... yes configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/include/Makefile config.status: creating src/gbtoolsUtils/Makefile config.status: creating src/gbtoolsGUI/Makefile config.status: creating src/gbtoolsCurl/Makefile config.status: creating src/gbtoolsTrackhub/Makefile config.status: creating src/gbtoolsPfetch/Makefile config.status: creating src/jsoncpp/Makefile config.status: creating src/blatSrc/Makefile config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands ------------------------------------------------- gbtools Version 0.5.0 Prefix: '/usr/local' Compiler: '/usr/local/bin/clang++36 -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing ' Now type 'make []' where the optional [] is: all - build all libraries (default) install - build and install everything ------------------------------------------------- ------------------------------------------------- SeqTools Version 4.43.0 Prefix: '/usr/local' Compiler: '/usr/local/bin/clang36 -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing ' Now type 'make []' where the optional [] is: all - build all binaries (default) install - build and install everything - build specific program ------------------------------------------------- =========================================================================== =================================================== ===> Building for seqtools-4.43.0 /usr/bin/make all-recursive Making all in . Making all in gbtools /usr/bin/make all-recursive Making all in src Making all in include Making all in gbtoolsUtils Making all in . /bin/sh ../../libtool --tag=CXX --mode=compile /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsUtils.lo -MD -MP -MF .deps/gbtoolsUtils.Tpo -c -o gbtoolsUtils.lo gbtoolsUtils.cpp libtool: compile: /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsUtils.lo -MD -MP -MF .deps/gbtoolsUtils.Tpo -c gbtoolsUtils.cpp -o gbtoolsUtils.o mv -f .deps/gbtoolsUtils.Tpo .deps/gbtoolsUtils.Plo /bin/sh ../../libtool --tag=CXX --mode=link /usr/local/bin/clang++36 -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -L/usr/local/lib -lexecinfo -lcurl -lsqlite3 -lm -fstack-protector -o libgbtoolsUtils.la gbtoolsUtils.lo libtool: link: ar cru .libs/libgbtoolsUtils.a gbtoolsUtils.o libtool: link: ranlib .libs/libgbtoolsUtils.a libtool: link: ( cd ".libs" && rm -f "libgbtoolsUtils.la" && ln -s "../libgbtoolsUtils.la" "libgbtoolsUtils.la" ) Making all in gbtoolsGUI Making all in . /bin/sh ../../libtool --tag=CXX --mode=compile /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsGUI.lo -MD -MP -MF .deps/gbtoolsGUI.Tpo -c -o gbtoolsGUI.lo gbtoolsGUI.cpp libtool: compile: /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsGUI.lo -MD -MP -MF .deps/gbtoolsGUI.Tpo -c gbtoolsGUI.cpp -o gbtoolsGUI.o mv -f .deps/gbtoolsGUI.Tpo .deps/gbtoolsGUI.Plo /bin/sh ../../libtool --tag=CXX --mode=link /usr/local/bin/clang++36 -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -L/usr/local/lib -lexecinfo -lcurl -lsqlite3 -lm -fstack-protector -o libgbtoolsGUI.la gbtoolsGUI.lo libtool: link: ar cru .libs/libgbtoolsGUI.a gbtoolsGUI.o libtool: link: ranlib .libs/libgbtoolsGUI.a libtool: link: ( cd ".libs" && rm -f "libgbtoolsGUI.la" && ln -s "../libgbtoolsGUI.la" "libgbtoolsGUI.la" ) Making all in gbtoolsPfetch Making all in . /bin/sh ../../libtool --tag=CXX --mode=compile /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsPfetch.lo -MD -MP -MF .deps/gbtoolsPfetch.Tpo -c -o gbtoolsPfetch.lo gbtoolsPfetch.cpp libtool: compile: /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsPfetch.lo -MD -MP -MF .deps/gbtoolsPfetch.Tpo -c gbtoolsPfetch.cpp -o gbtoolsPfetch.o mv -f .deps/gbtoolsPfetch.Tpo .deps/gbtoolsPfetch.Plo /bin/sh ../../libtool --tag=CXX --mode=compile /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsPfetchPipe.lo -MD -MP -MF .deps/gbtoolsPfetchPipe.Tpo -c -o gbtoolsPfetchPipe.lo gbtoolsPfetchPipe.cpp libtool: compile: /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsPfetchPipe.lo -MD -MP -MF .deps/gbtoolsPfetchPipe.Tpo -c gbtoolsPfetchPipe.cpp -o gbtoolsPfetchPipe.o mv -f .deps/gbtoolsPfetchPipe.Tpo .deps/gbtoolsPfetchPipe.Plo /bin/sh ../../libtool --tag=CXX --mode=compile /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsPfetchHttp.lo -MD -MP -MF .deps/gbtoolsPfetchHttp.Tpo -c -o gbtoolsPfetchHttp.lo gbtoolsPfetchHttp.cpp libtool: compile: /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsPfetchHttp.lo -MD -MP -MF .deps/gbtoolsPfetchHttp.Tpo -c gbtoolsPfetchHttp.cpp -o gbtoolsPfetchHttp.o mv -f .deps/gbtoolsPfetchHttp.Tpo .deps/gbtoolsPfetchHttp.Plo /bin/sh ../../libtool --tag=CXX --mode=link /usr/local/bin/clang++36 -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -L/usr/local/lib -lexecinfo -lcurl -lsqlite3 -lm -fstack-protector -o libgbtoolsPfetch.la gbtoolsPfetch.lo gbtoolsPfetchPipe.lo gbtoolsPfetchHttp.lo libtool: link: ar cru .libs/libgbtoolsPfetch.a gbtoolsPfetch.o gbtoolsPfetchPipe.o gbtoolsPfetchHttp.o libtool: link: ranlib .libs/libgbtoolsPfetch.a libtool: link: ( cd ".libs" && rm -f "libgbtoolsPfetch.la" && ln -s "../libgbtoolsPfetch.la" "libgbtoolsPfetch.la" ) Making all in gbtoolsCurl Making all in . /bin/sh ../../libtool --tag=CXX --mode=compile /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsCurl.lo -MD -MP -MF .deps/gbtoolsCurl.Tpo -c -o gbtoolsCurl.lo gbtoolsCurl.cpp libtool: compile: /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsCurl.lo -MD -MP -MF .deps/gbtoolsCurl.Tpo -c gbtoolsCurl.cpp -o gbtoolsCurl.o gbtoolsCurl.cpp:257:23: warning: address of array 'curl_object->error_message' will always evaluate to 'true' [-Wpointer-bool-conversion] if(curl_object->error_message) ~~ ~~~~~~~~~~~~~^~~~~~~~~~~~~ 1 warning generated. mv -f .deps/gbtoolsCurl.Tpo .deps/gbtoolsCurl.Plo /bin/sh ../../libtool --tag=CXX --mode=link /usr/local/bin/clang++36 -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -L/usr/local/lib -lexecinfo -lcurl -lsqlite3 -lm -fstack-protector -o libgbtoolsCurl.la gbtoolsCurl.lo libtool: link: ar cru .libs/libgbtoolsCurl.a gbtoolsCurl.o libtool: link: ranlib .libs/libgbtoolsCurl.a libtool: link: ( cd ".libs" && rm -f "libgbtoolsCurl.la" && ln -s "../libgbtoolsCurl.la" "libgbtoolsCurl.la" ) Making all in gbtoolsTrackhub Making all in . /bin/sh ../../libtool --tag=CXX --mode=compile /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsTrackhub.lo -MD -MP -MF .deps/gbtoolsTrackhub.Tpo -c -o gbtoolsTrackhub.lo gbtoolsTrackhub.cpp libtool: compile: /usr/local/bin/clang++36 -DHAVE_CONFIG_H -I. -I../.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I../../src/include -I../../src/include/blatSrc -std=c++0x -g -Wall -O2 -pipe -I/usr/local/include -fstack-protector -fno-strict-aliasing -MT gbtoolsTrackhub.lo -MD -MP -MF .deps/gbtoolsTrackhub.Tpo -c gbtoolsTrackhub.cpp -o gbtoolsTrackhub.o In file included from gbtoolsTrackhub.cpp:36: ../../src/include/json/json.h:170:41: error: no member named 'forward' in namespace 'std' ::new (static_cast(p)) T(std::forward(args)...); ~~~~~^ ../../src/include/json/json.h:170:49: error: 'Args' does not refer to a value ::new (static_cast(p)) T(std::forward(args)...); ^ ../../src/include/json/json.h:167:24: note: declared here template ^ ../../src/include/json/json.h:178:11: error: no member named 'addressof' in namespace 'std'; did you mean 'address'? return std::addressof(x); ^~~~~~~~~~~~~~ address ../../src/include/json/json.h:181:17: note: 'address' declared here const_pointer address( const_reference x ) const { ^ ../../src/include/json/json.h:182:11: error: no member named 'addressof' in namespace 'std'; did you mean 'address'? return std::addressof(x); ^~~~~~~~~~~~~~ address ../../src/include/json/json.h:181:17: note: 'address' declared here const_pointer address( const_reference x ) const { ^ 4 errors generated. *** [gbtoolsTrackhub.lo] Error code 1 Stop in /wrkdirs/usr/ports/biology/seqtools/work/seqtools-4.43.0/gbtools/src/gbtoolsTrackhub. *** [all-recursive] Error code 1 Stop in /wrkdirs/usr/ports/biology/seqtools/work/seqtools-4.43.0/gbtools/src/gbtoolsTrackhub. *** [all-recursive] Error code 1 Stop in /wrkdirs/usr/ports/biology/seqtools/work/seqtools-4.43.0/gbtools/src. *** [all-recursive] Error code 1 Stop in /wrkdirs/usr/ports/biology/seqtools/work/seqtools-4.43.0/gbtools. *** [all] Error code 1 Stop in /wrkdirs/usr/ports/biology/seqtools/work/seqtools-4.43.0/gbtools. *** [all-recursive] Error code 1 Stop in /wrkdirs/usr/ports/biology/seqtools/work/seqtools-4.43.0. *** [all] Error code 1 Stop in /wrkdirs/usr/ports/biology/seqtools/work/seqtools-4.43.0. *** [do-build] Error code 1 Stop in /usr/ports/biology/seqtools. build of biology/seqtools ended at Tue Jul 26 20:59:44 CEST 2016 build time: 00:00:58 !!! build failure encountered !!! [00:01:17] ====>> Cleaning up [00:01:17] ====>> Umounting file systems