Date: Tue, 16 Apr 2019 04:01:46 GMT From: pkg-fallout@FreeBSD.org To: pkg-fallout@FreeBSD.org Subject: [package - 120powerpc64-quarterly][science/coot] Failed for coot-0.8.9.1_2 in configure Message-ID: <201904160401.x3G41ktB022985@pylon.nyi.freebsd.org>
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You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: yuri@FreeBSD.org Last committer: yuri@FreeBSD.org Ident: $FreeBSD: branches/2019Q2/science/coot/Makefile 490524 2019-01-17 05:59:38Z yuri $ Log URL: http://pylon.nyi.freebsd.org/data/120powerpc64-quarterly/499069/logs/coot-0.8.9.1_2.log Build URL: http://pylon.nyi.freebsd.org/build.html?mastername=120powerpc64-quarterly&build=499069 Log: =>> Building science/coot build started at Tue Apr 16 03:58:32 UTC 2019 port directory: /usr/ports/science/coot package name: coot-0.8.9.1_2 building for: FreeBSD 120powerpc64-quarterly-job-07 12.0-RELEASE-p3 FreeBSD 12.0-RELEASE-p3 1200086 powerpc maintained by: yuri@FreeBSD.org Makefile ident: $FreeBSD: branches/2019Q2/science/coot/Makefile 490524 2019-01-17 05:59:38Z yuri $ Poudriere version: 3.2.8-3-g02cc9753 Host OSVERSION: 1300012 Jail OSVERSION: 1200086 Job Id: 07 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1200086 UNAME_v=FreeBSD 12.0-RELEASE-p3 1200086 UNAME_r=12.0-RELEASE-p3 BLOCKSIZE=K MAIL=/var/mail/root STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin LOCALBASE=/usr/local USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-3-g02cc9753 MASTERMNT=/usr/local/poudriere/data/.m/120powerpc64-quarterly/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/120powerpc64-quarterly/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=120powerpc64-quarterly SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/120powerpc64-quarterly/ref/.p SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= DEPENDS_ARGS= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---End OPTIONS List--- --MAINTAINER-- yuri@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --enable-shared --disable-static --x-libraries=/usr/local/lib --x-includes=/usr/local/include --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- F77="gfortran8" FC="gfortran8" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc8" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc8" MAKE=gmake PKG_CONFIG=pkgconf PYTHON="/usr/local/bin/python2.7" XDG_DATA_HOME=/wrkdirs/usr/ports/science/coot/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/coot/work HOME=/wrkdirs/usr/ports/science/coot/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/coot/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" CMAKE_PREFIX_PATH="/usr/local" LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_m ax_cmd_len=262144 --End CONFIGURE_ENV-- --MAKE_ENV-- PYTHON=/usr/local/bin/python2.7 F77="gfortran8" FC="gfortran8" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc8" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc8" XDG_DATA_HOME=/wrkdirs/usr/ports/science/coot/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/coot/work HOME=/wrkdirs/usr/ports/science/coot/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/coot/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -isystem / usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -Wl,-rpath=/usr/local/lib/gcc8 -L/usr/local/lib/gcc8 -B/usr/local/bin -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include " MANPREFIX="/usr/local" 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-- GTK2_VERSION="2.10.0" GTK3_VERSION="3.0.0" PYTHON_INCLUDEDIR=include/python2.7 PYTHON_LIBDIR=lib/python2.7 PYTHON_PLATFORM=freebsd12 PYTHON_PYOEXTENSION=pyo PYTHON_SITELIBDIR=lib/python2.7/site-packages PYTHON_SUFFIX=27 PYTHON_VER=2.7 PYTHON_VERSION=python2.7 PYTHON2="" PYTHON3="@comment " OSREL=12.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/coot" EXAMPLESDIR="share/examples/coot" DATADIR="share/coot" WWWDIR="www/coot" ETCDIR="etc/coot" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/coot DOCSDIR=/usr/local/share/doc/coot EXAMPLESDIR=/usr/local/share/examples/coot WWWDIR=/usr/local/www/coot ETCDIR=/usr/local/etc/coot --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 #### /usr/local/etc/poudriere.d/make.conf #### # 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 2 jobs MAKE_JOBS_NUMBER=2 # stable/10 includes src.conf too late but make.conf is in sys.mk .if ${.CURDIR:M/poudriere/jails/10*/usr/src/usr.bin/xlint*} # Disable build of llib now that head no longer has lint(1) LINT= true .endif #### /usr/ports/Mk/Scripts/ports_env.sh #### _CCVERSION_921dbbb2=cc (GCC) 4.2.1 20070831 patched [FreeBSD] Copyright (C) 2007 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. _ALTCCVERSION_921dbbb2=none _CXXINTERNAL_acaad9ca=Using built-in specs. Target: powerpc64-undermydesk-freebsd Configured with: FreeBSD/powerpc64 system compiler Thread model: posix gcc version 4.2.1 20070831 patched [FreeBSD] "/usr/bin/ld" "--eh-frame-hdr" "-Qy" "-melf64ppc_fbsd" "--enable-new-dtags" "-dynamic-linker" "/libexec/ld-elf.so.1" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "-L/usr/lib" "/dev/null" "-lstdc++" "-lm" "-lgcc_s" "-lgcc" "-lc" "-lgcc_s" "-lgcc" "/usr/lib/crtsavres.o" "/usr/lib/crtend.o" "/usr/lib/crtn.o" CC_OUTPUT_921dbbb2_58173849=yes CC_OUTPUT_921dbbb2_9bdba57c=yes CC_OUTPUT_921dbbb2_6a4fe7f5=cc1: error: unrecognized command line option "-std=c11" CC_OUTPUT_921dbbb2_6bcac02b=yes CC_OUTPUT_921dbbb2_67d20829=yes CC_OUTPUT_921dbbb2_bfa62e83=cc1: error: unrecognized command line option "-std=gnu11" CC_OUTPUT_921dbbb2_f0b4d593=yes CC_OUTPUT_921dbbb2_308abb44=cc1plus: error: unrecognized command line option "-std=c++0x" CC_OUTPUT_921dbbb2_f00456e5=cc1plus: error: unrecognized command line option "-std=c++11" CC_OUTPUT_921dbbb2_65ad290d=cc1plus: error: unrecognized command line option "-std=c++14" CC_OUTPUT_921dbbb2_f2776b26=cc1plus: error: unrecognized command line option "-std=c++17" CC_OUTPUT_921dbbb2_b2657cc3=yes CC_OUTPUT_921dbbb2_380987f7=cc1plus: error: unrecognized command line option "-std=gnu++11" CC_OUTPUT_921dbbb2_160933ec=cc1plus: error: unrecognized command line option "-std=gnu++14" CC_OUTPUT_921dbbb2_fb62803b=cc1plus: error: unrecognized command line option "-std=gnu++17" _OBJC_CCVERSION_921dbbb2=cc (GCC) 4.2.1 20070831 patched [FreeBSD] Copyright (C) 2007 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. _OBJC_ALTCCVERSION_921dbbb2=none ARCH=powerpc64 OPSYS=FreeBSD _OSRELEASE=12.0-RELEASE-p3 OSREL=12.0 OSVERSION=1200086 PYTHONBASE=/usr/local CONFIGURE_MAX_CMD_LEN=262144 HAVE_PORTS_ENV=1 #### Misc Poudriere #### GID=0 UID=0 DISABLE_MAKE_JOBS=poudriere ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 33554432 stack size (kbytes, -s) 524288 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 1024 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 >============================ ===> License LGPL3 accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===> coot-0.8.9.1_2 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.5_5.txz [120powerpc64-quarterly-job-07] Installing pkg-1.10.5_5... [120powerpc64-quarterly-job-07] Extracting pkg-1.10.5_5: .......... done ===> coot-0.8.9.1_2 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of coot-0.8.9.1_2 =========================================================================== =======================<phase: fetch-depends >============================ =========================================================================== =======================<phase: fetch >============================ ===> License LGPL3 accepted by the user ===> Fetching all distfiles required by coot-0.8.9.1_2 for building =========================================================================== =======================<phase: checksum >============================ ===> License LGPL3 accepted by the user ===> Fetching all distfiles required by coot-0.8.9.1_2 for building => SHA256 Checksum OK for coot/coot-0.8.9.1.tar.gz. => SHA256 Checksum OK for coot/refmac-monomer-library.tar.gz. => SHA256 Checksum OK for coot/reference-structures.tar.gz. =========================================================================== =======================<phase: extract-depends>============================ =========================================================================== =======================<phase: extract >============================ ===> License LGPL3 accepted by the user ===> Fetching all distfiles required by coot-0.8.9.1_2 for building ===> Extracting for coot-0.8.9.1_2 => SHA256 Checksum OK for coot/coot-0.8.9.1.tar.gz. => SHA256 Checksum OK for coot/refmac-monomer-library.tar.gz. => SHA256 Checksum OK for coot/reference-structures.tar.gz. =========================================================================== =======================<phase: patch-depends >============================ =========================================================================== =======================<phase: patch >============================ ===> Patching for coot-0.8.9.1_2 ===> Applying FreeBSD patches for coot-0.8.9.1_2 =========================================================================== =======================<phase: build-depends >============================ ===> coot-0.8.9.1_2 depends on executable: update-desktop-database - not found ===> Installing existing package /packages/All/desktop-file-utils-0.23.txz [120powerpc64-quarterly-job-07] Installing desktop-file-utils-0.23... [120powerpc64-quarterly-job-07] `-- Installing gettext-runtime-0.19.8.1_2... [120powerpc64-quarterly-job-07] | `-- Installing indexinfo-0.3.1... [120powerpc64-quarterly-job-07] | `-- Extracting indexinfo-0.3.1: .... done [120powerpc64-quarterly-job-07] `-- Extracting gettext-runtime-0.19.8.1_2: .......... done [120powerpc64-quarterly-job-07] `-- Installing glib-2.56.3_3,1... [120powerpc64-quarterly-job-07] | `-- Installing gcc8-8.3.0_1... [120powerpc64-quarterly-job-07] | | `-- Installing binutils-2.32,1... <snip> ===> coot-0.8.9.1_2 depends on shared library: libglib-2.0.so - found (/usr/local/lib/libglib-2.0.so) ===> coot-0.8.9.1_2 depends on shared library: libintl.so - found (/usr/local/lib/libintl.so) ===> coot-0.8.9.1_2 depends on shared library: libgtk-x11-2.0.so - found (/usr/local/lib/libgtk-x11-2.0.so) ===> coot-0.8.9.1_2 depends on shared library: libart_lgpl_2.so - not found ===> Installing existing package /packages/All/libart_lgpl-2.3.21_3,1.txz [120powerpc64-quarterly-job-07] Installing libart_lgpl-2.3.21_3,1... [120powerpc64-quarterly-job-07] Extracting libart_lgpl-2.3.21_3,1: .......... done ===> coot-0.8.9.1_2 depends on shared library: libart_lgpl_2.so - found (/usr/local/lib/libart_lgpl_2.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libglade-2.0.so - not found ===> Installing existing package /packages/All/libglade2-2.6.4_9.txz [120powerpc64-quarterly-job-07] Installing libglade2-2.6.4_9... [120powerpc64-quarterly-job-07] `-- Installing xmlcatmgr-2.2_2... [120powerpc64-quarterly-job-07] `-- Extracting xmlcatmgr-2.2_2: ......... done + Creating /usr/local/share/sgml/catalog + Registering CATALOG catalog.ports (SGML) + Creating /usr/local/share/sgml/catalog.ports + Creating /usr/local/share/xml/catalog + Registering nextCatalog catalog.ports (XML) + Creating /usr/local/share/xml/catalog.ports [120powerpc64-quarterly-job-07] Extracting libglade2-2.6.4_9: .......... done Message from xmlcatmgr-2.2_2: The following catalogs are installed: 1) /usr/local/share/sgml/catalog The top level catalog for SGML stuff. It is not changed by any ports/packages except textproc/xmlcatmgr. 2) /usr/local/share/sgml/catalog.ports This catalog is for handling SGML stuff installed under /usr/local/share/sgml. It is changed by ports/packages. 3) /usr/local/share/xml/catalog The top level catalog for XML stuff. It is not changed by any ports/packages except textproc/xmlcatmgr. 4) /usr/local/share/xml/catalog.ports This catalog is for handling XML stuff installed under /usr/local/share/xml. It is changed by ports/packages. ===> coot-0.8.9.1_2 depends on shared library: libglade-2.0.so - found (/usr/local/lib/libglade-2.0.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libgnomecanvas-2.so - not found ===> Installing existing package /packages/All/libgnomecanvas-2.30.3_4.txz [120powerpc64-quarterly-job-07] Installing libgnomecanvas-2.30.3_4... [120powerpc64-quarterly-job-07] Extracting libgnomecanvas-2.30.3_4: .......... done ===> coot-0.8.9.1_2 depends on shared library: libgnomecanvas-2.so - found (/usr/local/lib/libgnomecanvas-2.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libxml2.so - found (/usr/local/lib/libxml2.so) ===> coot-0.8.9.1_2 depends on shared library: libpango-1.0.so - found (/usr/local/lib/libpango-1.0.so) ===> coot-0.8.9.1_2 depends on shared library: libpangox-1.0.so - found (/usr/local/lib/libpangox-1.0.so) ===> coot-0.8.9.1_2 depends on shared library: libsqlite3.so - not found ===> Installing existing package /packages/All/sqlite3-3.27.1_1.txz [120powerpc64-quarterly-job-07] Installing sqlite3-3.27.1_1... [120powerpc64-quarterly-job-07] Extracting sqlite3-3.27.1_1: .......... done ===> coot-0.8.9.1_2 depends on shared library: libsqlite3.so - found (/usr/local/lib/libsqlite3.so) ===> Returning to build of coot-0.8.9.1_2 =========================================================================== =======================<phase: configure >============================ ===> Configuring for coot-0.8.9.1_2 ===> FreeBSD 10 autotools fix applied to /wrkdirs/usr/ports/science/coot/work/coot-0.8.9.1/macros/libtool.m4 ===> FreeBSD 10 autotools fix applied to /wrkdirs/usr/ports/science/coot/work/coot-0.8.9.1/configure 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 gmake sets $(MAKE)... yes checking for style of include used by gmake... GNU checking for gcc... cc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether cc accepts -g... yes checking for cc option to accept ISO C89... none needed checking dependency style of cc... gcc3 checking for library containing strerror... none required checking for gcc... (cached) cc checking whether we are using the GNU C compiler... (cached) yes checking whether cc accepts -g... (cached) yes checking for cc option to accept ISO C89... (cached) none needed checking dependency style of cc... (cached) gcc3 checking how to run the C preprocessor... cpp 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 whether we are using the GNU C++ compiler... yes checking whether c++ accepts -g... yes checking dependency style of c++... gcc3 checking build system type... powerpc64-portbld-freebsd12.0 checking host system type... powerpc64-portbld-freebsd12.0 checking for a sed that does not truncate output... (cached) /usr/bin/sed checking for fgrep... (cached) /usr/bin/fgrep checking for ld used by cc... /usr/local/bin/ld checking if the linker (/usr/local/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/local/bin/nm checking the name lister (/usr/local/bin/nm) 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/local/bin/ld option to reload object files... -r checking for objdump... /usr/local/bin/objdump checking how to recognize dependent libraries... pass_all checking for ar... /usr/local/bin/ar checking for strip... strip checking for ranlib... /usr/local/bin/ranlib checking command to parse /usr/local/bin/nm output from cc object... ok 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 whether we are using the GNU C++ compiler... (cached) yes checking whether c++ accepts -g... (cached) yes checking dependency style of c++... (cached) gcc3 checking how to run the C++ preprocessor... c++ -E checking for objdir... .libs checking if cc supports -fno-rtti -fno-exceptions... no checking for cc option to produce PIC... -fPIC -DPIC checking if cc PIC flag -fPIC -DPIC works... yes checking if cc static flag -static works... yes checking if cc supports -c -o file.o... yes checking if cc supports -c -o file.o... (cached) yes checking whether the cc linker (/usr/local/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... freebsd12.0 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... yes checking whether to build static libraries... no checking for ld used by c++... /usr/local/bin/ld checking if the linker (/usr/local/bin/ld) is GNU ld... yes checking whether the c++ linker (/usr/local/bin/ld) supports shared libraries... yes checking for c++ option to produce PIC... -fPIC -DPIC checking if c++ PIC flag -fPIC -DPIC works... yes checking if c++ static flag -static works... yes checking if c++ supports -c -o file.o... yes checking if c++ supports -c -o file.o... (cached) yes checking whether the c++ linker (/usr/local/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... freebsd12.0 ld.so checking how to hardcode library paths into programs... immediate checking which libtool initialization strategy to adopt... AC-PROG-LIBTOOL checking what warning flags to pass to the C compiler... -Wall -Wunused checking what language compliance flags to pass to the C compiler... checking what warning flags to pass to the C++ compiler... -Wall -Wno-unused checking what language compliance flags to pass to the C++ compiler... checking sys/stdtypes.h usability... no checking sys/stdtypes.h presence... no checking for sys/stdtypes.h... no checking for OpenMP flag of C compiler... -fopenmp checking pkg-config is at least version 0.9.0... yes checking for GLIB... yes checking if this is MINGW on Windows... no checking for SQLite3... yes checking for mmdb2... yes checking for ssm... yes no checking for prefixed single-precision FFTW2 (sfftw.h)... yes checking for Clipper... yes Not using guile checking for gsl-config... /usr/local/bin/gsl-config checking for GSL - version >= 1.3... yes checking for GTK... yes checking for GNOME_CANVAS... yes checking for pkg-config... /usr/local/bin/pkg-config checking for GtkGLExt - version >= 1.0.0... no *** Could not run GtkGLExt test program, checking why... *** The test program compiled, but did not run. This usually means *** that the run-time linker is not finding GtkGLExt or finding the wrong *** version of GtkGLExt. If it is not finding GtkGLExt, you'll need to set your *** LD_LIBRARY_PATH environment variable, or edit /etc/ld.so.conf to point *** to the installed location Also, make sure you have run ldconfig if that *** is required on your system *** *** If you have an old version installed, it is best to remove it, although *** you may also be able to get things to work by modifying LD_LIBRARY_PATH ===> Script "configure" failed unexpectedly. Please report the problem to yuri@FreeBSD.org [maintainer] and attach the "/wrkdirs/usr/ports/science/coot/work/coot-0.8.9.1/config.log" including the output of the failure of your make command. Also, it might be a good idea to provide an overview of all packages installed on your system (e.g. a /usr/local/sbin/pkg-static info -g -Ea). *** Error code 1 Stop. make: stopped in /usr/ports/science/coot
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