#43393: installation of `atlas' fails in configure phase --------------------------+-------------------------------- Reporter: veedeehjay@… | Owner: macports-tickets@… Type: defect | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.2.1 Keywords: | Port: atlas --------------------------+-------------------------------- this happens under 10.9.2. `atlas' is a dependency of several packages, specifically `octave', all of which don't install, accordingly. here is the logfile: {{{ version:1 :debug:main changing euid/egid - current euid: 0 - current egid: 0 :debug:main egid changed to: 501 :debug:main euid changed to: 502 :debug:main Executing org.macports.main (atlas) :debug:main Privilege de-escalation not attempted as not running as root. :debug:main Skipping completed org.macports.archivefetch (atlas) :debug:main Privilege de-escalation not attempted as not running as root. :debug:main Skipping completed org.macports.fetch (atlas) :debug:main Privilege de-escalation not attempted as not running as root. :debug:main Skipping completed org.macports.checksum (atlas) :debug:main Privilege de-escalation not attempted as not running as root. :debug:main Skipping completed org.macports.extract (atlas) :debug:main Privilege de-escalation not attempted as not running as root. :debug:main Skipping completed org.macports.patch (atlas) :debug:main Privilege de-escalation not attempted as not running as root. :debug:configure configure phase started at Thu Apr 17 15:07:35 CEST 2014 :notice:configure ---> Configuring atlas :debug:configure Using compiler 'MacPorts Clang 3.3' :debug:configure Executing proc-pre-org.macports.configure-configure-0 :msg:configure Selected C compiler: /opt/local/bin/clang-mp-3.3 :msg:configure Selected F77 compiler: gfortran48 :debug:configure Executing reinplace: /usr/bin/sed -E {s|GOODGCC =.*|GOODGCC = /opt/local/bin/clang-mp-3.3");|} < /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/CONFIG/src/SpewMakeInc.c

@ file12 :debug:configure euid/egid changed to: 0/0 :debug:configure chowned /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/CONFIG/src/SpewMakeInc.c to macports :debug:configure euid/egid changed to: 502/501 :debug:configure euid/egid changed to: 0/0 :debug:configure setting attributes on /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/CONFIG/src/SpewMakeInc.c :debug:configure euid/egid changed to: 502/501 :debug:configure Executing reinplace: /usr/bin/sed s|cc=gcc|cc=/opt/local/bin/clang-mp-3.3|g < /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/configure @ file12 :debug:configure euid/egid changed to: 0/0 :debug:configure chowned /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/configure to macports :debug:configure euid/egid changed to: 502/501 :debug:configure euid/egid changed to: 0/0 :debug:configure setting attributes on /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/configure :debug:configure euid/egid changed to: 502/501 :debug:configure Executing reinplace: /usr/bin/sed s|-no-cpp-precomp||g < /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/CONFIG/src/atlcomp.txt @ file12 :debug:configure euid/egid changed to: 0/0 :debug:configure chowned /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/CONFIG/src/atlcomp.txt to macports :debug:configure euid/egid changed to: 502/501 :debug:configure euid/egid changed to: 0/0 :debug:configure setting attributes on /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/CONFIG/src/atlcomp.txt :debug:configure euid/egid changed to: 502/501 :debug:configure Executing org.macports.configure (atlas) :debug:configure Environment: CPATH='/opt/local/include' CFLAGS='-pipe -Os -arch x86_64' CPPFLAGS='-I/opt/local/include' CXXFLAGS='-pipe -Os -arch x86_64' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.9' CXX='/opt/local/bin/clang++-mp-3.3' CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/.CC_PRINT_OPTIONS' F90FLAGS='-pipe -Os -m64' LDFLAGS='-L/opt/local/lib -Wl,-headerpad_max_install_names -arch x86_64' FCFLAGS='-pipe -Os -m64' OBJC='/opt/local/bin/clang-mp-3.3' OBJCXX='/opt/local/bin/clang++-mp-3.3' INSTALL='/usr/bin/install -c' FFLAGS='-pipe -Os -m64' OBJCFLAGS='-pipe -Os -arch x86_64' OBJCXXFLAGS='-pipe -Os -arch x86_64' F77='/opt/local/bin /gfortran-mp-4.8' CC_PRINT_OPTIONS='YES' CC='/opt/local/bin/clang-mp-3.3' :debug:configure Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/build" && ../configure --prefix=/opt/local --with-netlib-lapack- tarfile=/opt/local/var/macports/distfiles/atlas/lapack-3.4.2.tgz -O 12 -v 5 --dylibs -Si omp 0 -C acg /opt/local/bin/clang-mp-3.3 -F acg '-O3 -fomit-frame-pointer -fPIC -march=native -mavx' -C if /opt/local/bin /gfortran-mp-4.8 -F if '-fomit-frame-pointer -mfpmath=sse -O3 -fno- schedule-insns2 -fPIC -msse4.2' -Ss f77lib /opt/local/lib/gcc48/libgfortran.dylib -b 64 -D c -DPentiumCPS=3000' :debug:configure Executing command line: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/build" && ../configure --prefix=/opt/local --with-netlib-lapack- tarfile=/opt/local/var/macports/distfiles/atlas/lapack-3.4.2.tgz -O 12 -v 5 --dylibs -Si omp 0 -C acg /opt/local/bin/clang-mp-3.3 -F acg '-O3 -fomit-frame-pointer -fPIC -march=native -mavx' -C if /opt/local/bin /gfortran-mp-4.8 -F if '-fomit-frame-pointer -mfpmath=sse -O3 -fno- schedule-insns2 -fPIC -msse4.2' -Ss f77lib /opt/local/lib/gcc48/libgfortran.dylib -b 64 -D c -DPentiumCPS=3000 :info:configure /opt/local/bin/clang-mp-3.3 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/build/..//CONFIG/include -g -w -DATL_DYLIBS -c /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/build/..//CONFIG/src/atlconf_misc.c :info:configure In file included from /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/build/..//CONFIG/src/atlconf_misc.c:30: :info:configure /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/build/..//CONFIG/include/atlconf.h:4:10: fatal error: 'stdio.h' file not found :info:configure #include <stdio.h> :info:configure ^ :info:configure 1 error generated. :info:configure make: *** [atlconf_misc.o] Error 1 :info:configure ./xconfig -d s /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/build/../ -d b /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/build -Si lapackref 1 -O 12 -v 5 -D c -DATL_DYLIBS -Si omp 0 -C acg /opt/local/bin/clang-mp-3.3 -F acg '-O3 -fomit-frame-pointer -fPIC -march=native -mavx' -C if /opt/local/bin/gfortran-mp-4.8 -F if '-fomit- frame-pointer -mfpmath=sse -O3 -fno-schedule-insns2 -fPIC -msse4.2' -Ss f77lib /opt/local/lib/gcc48/libgfortran.dylib -b 64 -D c -DPentiumCPS=3000 :info:configure /bin/sh: line 1: ./xconfig: No such file or directory :info:configure xconfig exited with 127 :info:configure Command failed: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/work/ATLAS/build" && ../configure --prefix=/opt/local --with-netlib-lapack- tarfile=/opt/local/var/macports/distfiles/atlas/lapack-3.4.2.tgz -O 12 -v 5 --dylibs -Si omp 0 -C acg /opt/local/bin/clang-mp-3.3 -F acg '-O3 -fomit-frame-pointer -fPIC -march=native -mavx' -C if /opt/local/bin /gfortran-mp-4.8 -F if '-fomit-frame-pointer -mfpmath=sse -O3 -fno- schedule-insns2 -fPIC -msse4.2' -Ss f77lib /opt/local/lib/gcc48/libgfortran.dylib -b 64 -D c -DPentiumCPS=3000 :info:configure Exit code: 127 :error:configure org.macports.configure for port atlas returned: configure failure: command execution failed :debug:configure Error code: NONE :debug:configure Backtrace: configure failure: command execution failed while executing "$procedure $targetname" :info:configure Warning: targets not executed for atlas: org.macports.activate org.macports.configure org.macports.build org.macports.destroot org.macports.install :error:configure Failed to install atlas :debug:configure couldn't open "/System/Library/Frameworks/Tcl.framework/Versions/8.5/Resources/tclIndex": no such file or directory while executing "open [file join $dir tclIndex]" :notice:configure Please see the log file for port atlas for details: /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_math_atlas/atlas/main.log }}}

-- Ticket URL: <https://trac.macports.org/ticket/43393> MacPorts <http://www.macports.org/> Ports system for OS X