[MacPorts] #43393: installation of `atlas' fails in configure phase
MacPorts
noreply at macports.org
Thu Apr 17 06:49:46 PDT 2014
#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>
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