Re: Macports py26-numpy Issue on OS X Mavericks
On Sat, Nov 23, 2013 at 3:02 AM, david laxer dbl...@yahoo.com wrote: Question: Going forward, is it problematic to use Brew to install Ruby packages, etc.? Yes. Don't mix package managers; you can easily break both of them. Pick one. -- brandon s allbery kf8nh sine nomine associates allber...@gmail.com ballb...@sinenomine.net unix, openafs, kerberos, infrastructure, xmonadhttp://sinenomine.net ___ macports-users mailing list macports-users@lists.macosforge.org https://lists.macosforge.org/mailman/listinfo/macports-users
Re: Macports py26-numpy Issue on OS X Mavericks
On Nov 23, 2013, at 10:07, david laxer wrote: Now, I'm getting errors building a python package (e.g. - milk) with easy_install (and in PyCharm). Could this be related to the MacPorts problem? Thanks in advance! sudo easy_install milk Searching for milk Reading http://pypi.python.org/simple/milk/ Best match: milk 0.5.3 Downloading https://pypi.python.org/packages/source/m/milk/milk-0.5.3.tar.gz#md5=e0b7db663b29f050fb47bb49eb8d7411 Processing milk-0.5.3.tar.gz Writing /tmp/easy_install-z1VbO9/milk-0.5.3/setup.cfg Running milk-0.5.3/setup.py -q bdist_egg --dist-dir /tmp/easy_install-z1VbO9/milk-0.5.3/egg-dist-tmp-5EEIYL In file included from milk/supervised/_perceptron.cpp:4: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/iostream:40: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/istream:156: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/ostream:132: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/locale:187: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/cstdlib:86: In file included from /Developer/SDKs/MacOSX10.5.sdk/usr/include/stdlib.h:61: You're running Mavericks, so the oldest OS X SDK you should have is for OS X v10.8. In fact the entire /Developer directory should no longer exist as of Xcode 4.3. Depending on how old the version of OS X was that you upgraded from, perhaps this did not get cleaned up properly. I’m guessing you upgraded from Snow Leopard? You should probably run the devtools uninstallation script, if it still exists: sudo /Developer/Library/uninstall-devtools --mode=all Then, if it still remains, delete the /Developer folder. The uninstall script may have deleted parts of the new Xcode command line tools that you still need, so you should reinstall the Xcode command line tools. Since Xcode itself is in a different location now than it was then, the old uninstall script shouldn’t have touched it and you shouldn’t need to reinstall it. ___ macports-users mailing list macports-users@lists.macosforge.org https://lists.macosforge.org/mailman/listinfo/macports-users
Re: Macports py26-numpy Issue on OS X Mavericks
Removing the 'ancient' OsX SDK (and /Developer directory) solved the problem. Many Thanks! On Saturday, November 23, 2013 11:43 AM, Ryan Schmidt ryandes...@macports.org wrote: On Nov 23, 2013, at 10:07, david laxer wrote: Now, I'm getting errors building a python package (e.g. - milk) with easy_install (and in PyCharm). Could this be related to the MacPorts problem? Thanks in advance! sudo easy_install milk Searching for milk Reading http://pypi.python.org/simple/milk/ Best match: milk 0.5.3 Downloading https://pypi.python.org/packages/source/m/milk/milk-0.5.3.tar.gz#md5=e0b7db663b29f050fb47bb49eb8d7411 Processing milk-0.5.3.tar.gz Writing /tmp/easy_install-z1VbO9/milk-0.5.3/setup.cfg Running milk-0.5.3/setup.py -q bdist_egg --dist-dir /tmp/easy_install-z1VbO9/milk-0.5.3/egg-dist-tmp-5EEIYL In file included from milk/supervised/_perceptron.cpp:4: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/iostream:40: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/istream:156: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/ostream:132: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/locale:187: In file included from /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/c++/v1/cstdlib:86: In file included from /Developer/SDKs/MacOSX10.5.sdk/usr/include/stdlib.h:61: You're running Mavericks, so the oldest OS X SDK you should have is for OS X v10.8. In fact the entire /Developer directory should no longer exist as of Xcode 4.3. Depending on how old the version of OS X was that you upgraded from, perhaps this did not get cleaned up properly. I’m guessing you upgraded from Snow Leopard? You should probably run the devtools uninstallation script, if it still exists: sudo /Developer/Library/uninstall-devtools --mode=all Then, if it still remains, delete the /Developer folder. The uninstall script may have deleted parts of the new Xcode command line tools that you still need, so you should reinstall the Xcode command line tools. Since Xcode itself is in a different location now than it was then, the old uninstall script shouldn’t have touched it and you shouldn’t need to reinstall it.___ macports-users mailing list macports-users@lists.macosforge.org https://lists.macosforge.org/mailman/listinfo/macports-users
Re: Macports py26-numpy Issue on OS X Mavericks
On Nov 21, 2013, at 20:56, david laxer wrote: I tried different commands: 504 sudo port clean py26-numpy 505 sudo port selfupdate 506 sudo port install py26-numpy [+variants] 508 sudo port -f activate py26-numpy 509 sudo port -f activate py26-numpy variants 513 curl -O https://svn.macports.org/repository/macports/contrib/restore_ports/restore_ports.tcl 514 chmod +x restore_ports.tcl 515 sudo ./restore_ports.tcl myports.txt 525 sudo port install py26-numpy [+variants] 526 history 527 sudo port clean py26-numpy Are you literally typing “[+variants]”? If so, that’s wrong. You can specify variants there, such as “sudo port install py26-numpy +universal” or if you don’t want to use any variants you can just use “sudo port install py26-numpy”. You can get a list of available variants for a port by running e.g. “port variants py26-numpy”. However, I keep getting various errors: … --- Computing dependencies for py26-matplotlib --- Dependencies to be installed: py26-numpy Error: Requested variants do not match original selection +universal. Please use the same variants again, perform 'port clean py26-numpy' or specify the force option (-f). Error: Failed to install py26-numpy Run “sudo port clean py26-numpy”. Error: Requested variants do not match original selection +universal. Please use the same variants again, perform 'port clean python26' or specify the force option (-f). Run “sudo port clean python26”. ___ macports-users mailing list macports-users@lists.macosforge.org https://lists.macosforge.org/mailman/listinfo/macports-users
Re: Macports py26-numpy Issue on OS X Mavericks
Remember to Reply All so this discussion remains on the mailing list and does not move to private email. On Nov 22, 2013, at 15:26, david laxer wrote: Hi Ryan, I tried this: David-Laxers-MacBook-Pro:~ davidlaxer$ sudo port clean py26-numpy Password: --- Cleaning py26-numpy David-Laxers-MacBook-Pro:~ davidlaxer$ sudo port clean python26 --- Cleaning python26 David-Laxers-MacBook-Pro:~ davidlaxer$ Next, David-Laxers-MacBook-Pro:~ davidlaxer$ sudo ./restore_ports.tcl myports.txt Warning: Skipping ncursesw (not in the ports tree) --- Cleaning bzip2 --- Cleaning cctools-headers --- Cleaning db_select --- Cleaning expat --- Cleaning expat --- Cleaning fftw-3 --- Cleaning fftw-3 --- Cleaning gcc_select --- Cleaning gmp --- Cleaning gmp --- Cleaning gperf --- Cleaning gperf --- Cleaning icu --- Cleaning icu --- Cleaning libffi --- Cleaning libiconv --- Cleaning libiconv --- Cleaning llvm_select --- Cleaning m4 --- Cleaning ncurses --- Cleaning ncurses --- Cleaning ncurses --- Cleaning nosetests_select --- Cleaning nspr --- Cleaning nspr --- Computing dependencies for pkgconfig --- Cleaning pkgconfig --- Computing dependencies for pkgconfig --- Cleaning pkgconfig --- Configuring py26-distribute Error: py26-distribute is obsolete, please install py26-setuptools instead. Error: org.macports.configure for port py26-distribute returned: obsolete port Please see the log file for port py26-distribute for details: /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_python_py-distribute/py26-distribute/main.log --- Cleaning python_select --- Cleaning python_select --- Computing dependencies for readline --- Cleaning readline --- Computing dependencies for readline --- Cleaning readline --- Computing dependencies for spidermonkey --- Cleaning spidermonkey --- Computing dependencies for spidermonkey185 --- Cleaning spidermonkey185 --- Cleaning tcl --- Cleaning tcl --- Cleaning tcp_wrappers --- Cleaning xorg-bigreqsproto --- Cleaning xorg-bigreqsproto --- Cleaning xorg-inputproto --- Cleaning xorg-inputproto --- Cleaning xorg-kbproto --- Cleaning xorg-kbproto --- Cleaning xorg-libpthread-stubs --- Cleaning xorg-renderproto --- Cleaning xorg-scrnsaverproto --- Cleaning xorg-util-macros --- Cleaning xorg-util-macros --- Cleaning xorg-xcmiscproto --- Cleaning xorg-xcmiscproto --- Cleaning xorg-xextproto --- Cleaning xorg-xextproto --- Cleaning xorg-xf86bigfontproto --- Cleaning xorg-xproto --- Cleaning xorg-xproto --- Cleaning xorg-xtrans --- Cleaning xorg-xtrans --- Computing dependencies for dbus --- Cleaning dbus --- Computing dependencies for dbus --- Cleaning dbus --- Computing dependencies for gettext --- Cleaning gettext --- Computing dependencies for gettext --- Cleaning gettext --- Computing dependencies for libedit --- Cleaning libedit --- Computing dependencies for libidn --- Cleaning libidn --- Computing dependencies for libidn --- Cleaning libidn --- Computing dependencies for sqlite3 --- Cleaning sqlite3 --- Computing dependencies for sqlite3 --- Cleaning sqlite3 --- Computing dependencies for xorg-libXau --- Cleaning xorg-libXau --- Computing dependencies for xorg-libXau --- Cleaning xorg-libXau --- Cleaning xorg-libXdmcp --- Cleaning xorg-libXdmcp --- Computing dependencies for xz --- Cleaning xz --- Computing dependencies for xz --- Cleaning xz --- Computing dependencies for yasm --- Cleaning yasm --- Cleaning zlib --- Cleaning zlib --- Computing dependencies for gawk --- Cleaning gawk --- Computing dependencies for gawk --- Cleaning gawk --- Computing dependencies for gdbm --- Cleaning gdbm --- Computing dependencies for gdbm --- Cleaning gdbm --- Computing dependencies for glpk --- Cleaning glpk --- Computing dependencies for libpng --- Cleaning libpng --- Computing dependencies for libpng --- Cleaning libpng --- Computing dependencies for libxml2 --- Cleaning libxml2 --- Computing dependencies for libxml2 --- Cleaning libxml2 --- Computing dependencies for mpfr --- Cleaning mpfr --- Computing dependencies for mpfr --- Cleaning mpfr --- Computing dependencies for openssl --- Cleaning openssl --- Computing dependencies for openssl --- Cleaning openssl --- Computing dependencies for openssl --- Cleaning openssl --- Computing dependencies for perl5.12 --- Cleaning perl5.12 --- Computing dependencies for perl5.12 --- Cleaning perl5.12 --- Computing dependencies for ppl --- Cleaning ppl --- Computing dependencies for texinfo --- Cleaning texinfo --- Computing dependencies for freetype --- Cleaning freetype --- Computing dependencies for freetype --- Cleaning freetype --- Cleaning gzip --- Cleaning gzip --- Computing dependencies for libmpc --- Cleaning libmpc
Re: Macports py26-numpy Issue on OS X Mavericks
I did this: 701 sudo port -v selfupdate 703 sudo port upgrade outdated Also, this: 733 port -qv installed myports.txt 734 sudo port -f uninstall installed 735 sudo port clean all and this: sudo ./restore_ports.tcl myports.txt Why does /opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6/site-packages/numpy/core/_methods.py already exist if it does not belong to a port? I've done Ruby work in the past. Also, Boost installation. Could Brew cause this? On Friday, November 22, 2013 1:30 PM, Ryan Schmidt ryandes...@macports.org wrote: Remember to Reply All so this discussion remains on the mailing list and does not move to private email. On Nov 22, 2013, at 15:26, david laxer wrote: Hi Ryan, I tried this: David-Laxers-MacBook-Pro:~ davidlaxer$ sudo port clean py26-numpy Password: --- Cleaning py26-numpy David-Laxers-MacBook-Pro:~ davidlaxer$ sudo port clean python26 --- Cleaning python26 David-Laxers-MacBook-Pro:~ davidlaxer$ Next, David-Laxers-MacBook-Pro:~ davidlaxer$ sudo ./restore_ports.tcl myports.txt Warning: Skipping ncursesw (not in the ports tree) --- Cleaning bzip2 --- Cleaning cctools-headers --- Cleaning db_select --- Cleaning expat --- Cleaning expat --- Cleaning fftw-3 --- Cleaning fftw-3 --- Cleaning gcc_select --- Cleaning gmp --- Cleaning gmp --- Cleaning gperf --- Cleaning gperf --- Cleaning icu --- Cleaning icu --- Cleaning libffi --- Cleaning libiconv --- Cleaning libiconv --- Cleaning llvm_select --- Cleaning m4 --- Cleaning ncurses --- Cleaning ncurses --- Cleaning ncurses --- Cleaning nosetests_select --- Cleaning nspr --- Cleaning nspr --- Computing dependencies for pkgconfig --- Cleaning pkgconfig --- Computing dependencies for pkgconfig --- Cleaning pkgconfig --- Configuring py26-distribute Error: py26-distribute is obsolete, please install py26-setuptools instead. Error: org.macports.configure for port py26-distribute returned: obsolete port Please see the log file for port py26-distribute for details: /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_python_py-distribute/py26-distribute/main.log --- Cleaning python_select --- Cleaning python_select --- Computing dependencies for readline --- Cleaning readline --- Computing dependencies for readline --- Cleaning readline --- Computing dependencies for spidermonkey --- Cleaning spidermonkey --- Computing dependencies for spidermonkey185 --- Cleaning spidermonkey185 --- Cleaning tcl --- Cleaning tcl --- Cleaning tcp_wrappers --- Cleaning xorg-bigreqsproto --- Cleaning xorg-bigreqsproto --- Cleaning xorg-inputproto --- Cleaning xorg-inputproto --- Cleaning xorg-kbproto --- Cleaning xorg-kbproto --- Cleaning xorg-libpthread-stubs --- Cleaning xorg-renderproto --- Cleaning xorg-scrnsaverproto --- Cleaning xorg-util-macros --- Cleaning xorg-util-macros --- Cleaning xorg-xcmiscproto --- Cleaning xorg-xcmiscproto --- Cleaning xorg-xextproto --- Cleaning xorg-xextproto --- Cleaning xorg-xf86bigfontproto --- Cleaning xorg-xproto --- Cleaning xorg-xproto --- Cleaning xorg-xtrans --- Cleaning xorg-xtrans --- Computing dependencies for dbus --- Cleaning dbus --- Computing dependencies for dbus --- Cleaning dbus --- Computing dependencies for gettext --- Cleaning gettext --- Computing dependencies for gettext --- Cleaning gettext --- Computing dependencies for libedit --- Cleaning libedit --- Computing dependencies for libidn --- Cleaning libidn --- Computing dependencies for libidn --- Cleaning libidn --- Computing dependencies for sqlite3 --- Cleaning sqlite3 --- Computing dependencies for sqlite3 --- Cleaning sqlite3 --- Computing dependencies for xorg-libXau --- Cleaning xorg-libXau --- Computing dependencies for xorg-libXau --- Cleaning xorg-libXau --- Cleaning xorg-libXdmcp --- Cleaning xorg-libXdmcp --- Computing dependencies for xz --- Cleaning xz --- Computing dependencies for xz --- Cleaning xz --- Computing dependencies for yasm --- Cleaning yasm --- Cleaning zlib --- Cleaning zlib --- Computing dependencies for gawk --- Cleaning gawk --- Computing dependencies for gawk --- Cleaning gawk --- Computing dependencies for gdbm --- Cleaning gdbm --- Computing dependencies for gdbm --- Cleaning gdbm --- Computing dependencies for glpk --- Cleaning glpk --- Computing dependencies for libpng --- Cleaning libpng --- Computing dependencies for libpng --- Cleaning libpng --- Computing dependencies for libxml2 --- Cleaning libxml2 --- Computing dependencies for libxml2 --- Cleaning libxml2 --- Computing dependencies for mpfr --- Cleaning mpfr --- Computing dependencies for mpfr --- Cleaning mpfr --- Computing dependencies for openssl --- Cleaning openssl --- Computing
Re: Macports py26-numpy Issue on OS X Mavericks
On Nov 22, 2013, at 15:38, david laxer wrote: I did this: 701 sudo port -v selfupdate 703 sudo port upgrade outdated Also, this: 733 port -qv installed myports.txt 734 sudo port -f uninstall installed 735 sudo port clean all and this: sudo ./restore_ports.tcl myports.txt Why does /opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6/site-packages/numpy/core/_methods.py already exist if it does not belong to a port? I've done Ruby work in the past. Also, Boost installation. Could Brew cause this? /opt/local is MacPorts’ directory. Nobody else should be installing software there. This file is either on your system because you previously installed the py26-numpy port, then somehow cleared MacPorts’ database of what ports are installed without actually uninstalling the py26-numpy port, or because you installed a 3rd-party software package that was itself built using MacPorts and it installed files into the MacPorts directory. This situation is discussed (for a different port (expat), but it’s the same principle regardless what port it is) here: https://trac.macports.org/wiki/ProblemHotlist#xmlwf You can force the activation of py26-numpy, but if this one file exists and shouldn’t, it seems unlikely that it would be the only file, so you may run into this problem again later unless you fix it now. If you cannot explain why this file is there, the safest fix would be to uninstall MacPorts completely: http://guide.macports.org/chunked/installing.macports.uninstalling.html Then reinstall MacPorts and the ports you want (using the restore_ports.tcl script if you like). ___ macports-users mailing list macports-users@lists.macosforge.org https://lists.macosforge.org/mailman/listinfo/macports-users
Macports py26-numpy Issue on OS X Mavericks
Hi, I’m running MacPorts 2.2.1 on OSX Mavericks on a Mac and I’m having trouble with py26-numpy. I tried different commands: 504 sudo port clean py26-numpy 505 sudo port selfupdate 506 sudo port install py26-numpy [+variants] 508 sudo port -f activate py26-numpy 509 sudo port -f activate py26-numpy variants 513 curl -O https://svn.macports.org/repository/macports/contrib/restore_ports/restore_ports.tcl 514 chmod +x restore_ports.tcl 515 sudo ./restore_ports.tcl myports.txt 525 sudo port install py26-numpy [+variants] 526 history 527 sudo port clean py26-numpy However, I keep getting various errors: … --- Computing dependencies for py26-matplotlib --- Dependencies to be installed: py26-numpy Error: Requested variants do not match original selection +universal. Please use the same variants again, perform 'port clean py26-numpy' or specify the force option (-f). Error: Failed to install py26-numpy Please see the log file for port py26-numpy for details: /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_python_py-numpy/py26-numpy/main.log Error: The following dependencies were not installed: py26-numpy … --- Computing dependencies for isl --- Cleaning isl --- Computing dependencies for ld64 --- Cleaning ld64 Error: Requested variants do not match original selection +universal. Please use the same variants again, perform 'port clean python26' or specify the force option (-f). Error: Requested variants do not match original selection +universal. Please use the same variants again, perform 'port clean python26' or specify the force option (-f). can't create directory /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_python27: permission denied while executing file mkdir $workpath/.home (procedure open_statefile line 29) invoked from within open_statefile (procedure check_variants line 29) invoked from within check_variants install invoked from within $workername eval check_variants $target (procedure mportexec line 7) invoked from within mportexec $workername $install_target Unable to execute target 'install' for port 'python27': can't create directory /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_python27: permission denied while executing install_ports $operationList (file ./restore_ports.tcl line 269) Any ideas? Thanks in advance. Best, -Dave ___ macports-users mailing list macports-users@lists.macosforge.org https://lists.macosforge.org/mailman/listinfo/macports-users
