[MacPorts] #39774: py-openbabel install failure (was: py-openbabel lion install cd failure)
MacPorts
noreply at macports.org
Wed Jul 17 04:48:11 PDT 2013
#39774: py-openbabel install failure
---------------------------+--------------------------------
Reporter: ba306@… | Owner: macports-tickets@…
Type: defect | Status: new
Priority: Normal | Milestone:
Component: ports | Version: 2.1.3
Resolution: | Keywords:
Port: py-openbabel |
---------------------------+--------------------------------
Changes (by ciserlohn@…):
* keywords: python =>
* port: => py-openbabel
Old description:
> Hi,
> Trying to install python bindings for openbabel. Mac lion.
> Have been working on this for 4 days now!
> most recent error:
>
> version:1
> :debug:main Executing org.macports.main (openbabel)
> :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 Skipping completed org.macports.archivefetch (openbabel)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.fetch (openbabel)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.checksum (openbabel)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.extract (openbabel)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.patch (openbabel)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:configure configure phase started at Wed Jul 17 12:14:16 BST 2013
> :notice:configure ---> Configuring openbabel
> :debug:configure Using compiler 'Mac OS X clang'
> :debug:configure Executing proc-pre-org.macports.configure-configure-0
> :debug:configure Executing org.macports.configure (openbabel)
> :debug:configure Environment: CPATH='/opt/local/include' CFLAGS='-pipe
> -O2 -arch x86_64' CPPFLAGS='-I/opt/local/include' CXXFLAGS='-pipe -O2
> -arch x86_64' LIBRARY_PATH='/opt/local/lib'
> MACOSX_DEPLOYMENT_TARGET='10.7' CXX='/usr/bin/clang++'
> CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/work/.CC_PRINT_OPTIONS'
> F90FLAGS='-pipe -O2 -m64' LDFLAGS='-L/opt/local/lib -arch x86_64'
> OBJC='/usr/bin/clang' FCFLAGS='-pipe -O2 -m64' INSTALL='/usr/bin/install
> -c' OBJCFLAGS='-pipe -O2 -arch x86_64' FFLAGS='-pipe -O2 -m64'
> CC_PRINT_OPTIONS='YES' CC='/usr/bin/clang'
> :debug:configure Assembled command: 'cd
> "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/work/openbabel-2.3.1"
> && /opt/local/bin/cmake -DCMAKE_INSTALL_PREFIX=/opt/local
> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_COLOR_MAKEFILE=ON
> -DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON
> -DCMAKE_INSTALL_NAME_DIR=/opt/local/lib
> -DCMAKE_SYSTEM_PREFIX_PATH="/opt/local;/usr"
> -DCMAKE_MODULE_PATH=/opt/local/share/cmake/modules
> -DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev -DBUILD_GUI=OFF -DBUILD_TESTING=OFF
> -DPYTHON_BINDINGS=OFF -DCMAKE_OSX_ARCHITECTURES="x86_64"
> -DCMAKE_OSX_SYSROOT=/ -DCMAKE_OSX_DEPLOYMENT_TARGET=""'
> :debug:configure Executing command line: cd
> "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/work/openbabel-2.3.1"
> && /opt/local/bin/cmake -DCMAKE_INSTALL_PREFIX=/opt/local
> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_COLOR_MAKEFILE=ON
> -DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON
> -DCMAKE_INSTALL_NAME_DIR=/opt/local/lib
> -DCMAKE_SYSTEM_PREFIX_PATH="/opt/local;/usr"
> -DCMAKE_MODULE_PATH=/opt/local/share/cmake/modules
> -DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev -DBUILD_GUI=OFF -DBUILD_TESTING=OFF
> -DPYTHON_BINDINGS=OFF -DCMAKE_OSX_ARCHITECTURES="x86_64"
> -DCMAKE_OSX_SYSROOT=/ -DCMAKE_OSX_DEPLOYMENT_TARGET=""
> :info:configure -- Using included inchi library.
> :info:configure -- Could NOT find wxWidgets (missing: wxWidgets_FOUND)
> :info:configure CMake Error at
> /opt/local/share/cmake-2.8/Modules/FindPackageHandleStandardArgs.cmake:97
> (message):
> :info:configure Could NOT find PkgConfig (missing:
> PKG_CONFIG_EXECUTABLE)
> :info:configure Call Stack (most recent call first):
> :info:configure
> /opt/local/share/cmake-2.8/Modules/FindPackageHandleStandardArgs.cmake:291
> (_FPHSA_FAILURE_MESSAGE)
> :info:configure
> /opt/local/share/cmake-2.8/Modules/FindPkgConfig.cmake:102
> (find_package_handle_standard_args)
> :info:configure cmake/modules/FindCairo.cmake:23 (find_package)
> :info:configure CMakeLists.txt:404 (find_package)
> :info:configure
> :info:configure
> :info:configure -- Configuring incomplete, errors occurred!
> :info:configure Command failed: cd
> "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/work/openbabel-2.3.1"
> && /opt/local/bin/cmake -DCMAKE_INSTALL_PREFIX=/opt/local
> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_COLOR_MAKEFILE=ON
> -DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON
> -DCMAKE_INSTALL_NAME_DIR=/opt/local/lib
> -DCMAKE_SYSTEM_PREFIX_PATH="/opt/local;/usr"
> -DCMAKE_MODULE_PATH=/opt/local/share/cmake/modules
> -DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev -DBUILD_GUI=OFF -DBUILD_TESTING=OFF
> -DPYTHON_BINDINGS=OFF -DCMAKE_OSX_ARCHITECTURES="x86_64"
> -DCMAKE_OSX_SYSROOT=/ -DCMAKE_OSX_DEPLOYMENT_TARGET=""
> :info:configure Exit code: 1
> :error:configure org.macports.configure for port openbabel 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 openbabel:
> org.macports.activate org.macports.configure org.macports.build
> org.macports.destroot org.macports.install
> :error:configure Failed to install openbabel
> :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 openbabel for details:
> /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/main.log
New description:
Hi,
Trying to install python bindings for openbabel. Mac lion.
Have been working on this for 4 days now!
most recent error:
{{{
version:1
:debug:main Executing org.macports.main (openbabel)
: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 Skipping completed org.macports.archivefetch (openbabel)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.fetch (openbabel)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.checksum (openbabel)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.extract (openbabel)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.patch (openbabel)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:configure configure phase started at Wed Jul 17 12:14:16 BST 2013
:notice:configure ---> Configuring openbabel
:debug:configure Using compiler 'Mac OS X clang'
:debug:configure Executing proc-pre-org.macports.configure-configure-0
:debug:configure Executing org.macports.configure (openbabel)
:debug:configure Environment: CPATH='/opt/local/include' CFLAGS='-pipe -O2
-arch x86_64' CPPFLAGS='-I/opt/local/include' CXXFLAGS='-pipe -O2 -arch
x86_64' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.7'
CXX='/usr/bin/clang++'
CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/work/.CC_PRINT_OPTIONS'
F90FLAGS='-pipe -O2 -m64' LDFLAGS='-L/opt/local/lib -arch x86_64'
OBJC='/usr/bin/clang' FCFLAGS='-pipe -O2 -m64' INSTALL='/usr/bin/install
-c' OBJCFLAGS='-pipe -O2 -arch x86_64' FFLAGS='-pipe -O2 -m64'
CC_PRINT_OPTIONS='YES' CC='/usr/bin/clang'
:debug:configure Assembled command: 'cd
"/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/work/openbabel-2.3.1"
&& /opt/local/bin/cmake -DCMAKE_INSTALL_PREFIX=/opt/local
-DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_COLOR_MAKEFILE=ON
-DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON
-DCMAKE_INSTALL_NAME_DIR=/opt/local/lib
-DCMAKE_SYSTEM_PREFIX_PATH="/opt/local;/usr"
-DCMAKE_MODULE_PATH=/opt/local/share/cmake/modules
-DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev -DBUILD_GUI=OFF -DBUILD_TESTING=OFF
-DPYTHON_BINDINGS=OFF -DCMAKE_OSX_ARCHITECTURES="x86_64"
-DCMAKE_OSX_SYSROOT=/ -DCMAKE_OSX_DEPLOYMENT_TARGET=""'
:debug:configure Executing command line: cd
"/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/work/openbabel-2.3.1"
&& /opt/local/bin/cmake -DCMAKE_INSTALL_PREFIX=/opt/local
-DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_COLOR_MAKEFILE=ON
-DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON
-DCMAKE_INSTALL_NAME_DIR=/opt/local/lib
-DCMAKE_SYSTEM_PREFIX_PATH="/opt/local;/usr"
-DCMAKE_MODULE_PATH=/opt/local/share/cmake/modules
-DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev -DBUILD_GUI=OFF -DBUILD_TESTING=OFF
-DPYTHON_BINDINGS=OFF -DCMAKE_OSX_ARCHITECTURES="x86_64"
-DCMAKE_OSX_SYSROOT=/ -DCMAKE_OSX_DEPLOYMENT_TARGET=""
:info:configure -- Using included inchi library.
:info:configure -- Could NOT find wxWidgets (missing: wxWidgets_FOUND)
:info:configure CMake Error at
/opt/local/share/cmake-2.8/Modules/FindPackageHandleStandardArgs.cmake:97
(message):
:info:configure Could NOT find PkgConfig (missing:
PKG_CONFIG_EXECUTABLE)
:info:configure Call Stack (most recent call first):
:info:configure
/opt/local/share/cmake-2.8/Modules/FindPackageHandleStandardArgs.cmake:291
(_FPHSA_FAILURE_MESSAGE)
:info:configure
/opt/local/share/cmake-2.8/Modules/FindPkgConfig.cmake:102
(find_package_handle_standard_args)
:info:configure cmake/modules/FindCairo.cmake:23 (find_package)
:info:configure CMakeLists.txt:404 (find_package)
:info:configure
:info:configure
:info:configure -- Configuring incomplete, errors occurred!
:info:configure Command failed: cd
"/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/work/openbabel-2.3.1"
&& /opt/local/bin/cmake -DCMAKE_INSTALL_PREFIX=/opt/local
-DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_COLOR_MAKEFILE=ON
-DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON
-DCMAKE_INSTALL_NAME_DIR=/opt/local/lib
-DCMAKE_SYSTEM_PREFIX_PATH="/opt/local;/usr"
-DCMAKE_MODULE_PATH=/opt/local/share/cmake/modules
-DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev -DBUILD_GUI=OFF -DBUILD_TESTING=OFF
-DPYTHON_BINDINGS=OFF -DCMAKE_OSX_ARCHITECTURES="x86_64"
-DCMAKE_OSX_SYSROOT=/ -DCMAKE_OSX_DEPLOYMENT_TARGET=""
:info:configure Exit code: 1
:error:configure org.macports.configure for port openbabel 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 openbabel:
org.macports.activate org.macports.configure org.macports.build
org.macports.destroot org.macports.install
:error:configure Failed to install openbabel
: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 openbabel for details:
/opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_openbabel/openbabel/main.log
}}}
--
Comment:
This was not a clean attempt. Please try again:
{{{
$ sudo port selfupdate
$ sudo port install py-openbabel
}}}
and attach the log file if it fails.
In the future please remember to use WikiFormatting and fill in the port
field.
--
Ticket URL: <https://trac.macports.org/ticket/39774#comment:1>
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