mavericks移行で壊れた開発環境を修復する(備忘録)

たぶん次にOSアップデートするときにも同じことが起こるので…

いい加減アップデート通知が邪魔になってきたので、mavericksアップデートを寝ている間に走らせることに。
朝起きてみると、何事もなかったかのように再起動されていたが…tmuxが起動しない。

$ brew uninstall tmux && brew install tmux

で一応起動するようになったが他にもいろんなところが壊れたもよう…

pipも壊れたので治す

$ sudo easy_install pip

brew doctor走らせたらveclibfortがないと怒られたので…

$ brew install veclibfort

==> make all
==> make check
dyld: Library not loaded: /usr/local/lib/libcloog-isl.4.dylib
  Referenced from: /usr/local/Cellar/gcc/4.8.3_1/libexec/gcc/x86_64-apple-darwin13.2.0/4.8.3/f951
  Reason: image not found
gfortran: internal compiler error: Trace/BPT trap: 5 (program f951)
make: *** [check] Abort trap: 6

READ THIS: https://github.com/Homebrew/homebrew/wiki/troubleshooting
If reporting this issue please do so at (not Homebrew/homebrew):
  https://github.com/homebrew/homebrew-science/issues

cloogもないとな

$ brew uninstall cloog && brew install cloog

コマンドラインツールも入ってない？

$ xcode-select --install

gnuplotも...

==> Installing gnuplot
==> Downloading https://downloads.sourceforge.net/project/gnuplot/gnuplot/4.6.5/gnuplot-4.6.5.tar.gz
######################################################################## 100.0%
==> ./configure --disable-silent-rules --prefix=/usr/local/Cellar/gnuplot/4.6.5 --with-readline=/usr/local/opt/readline --with-pdf=/usr/local/opt/pdflib-lite --with-gd=/usr/local/opt/gd --disable-wxwidgets --with-aquaterm --with-x --witho
==> make
  Referenced from: /private/tmp/gnuplot-7jMx/gnuplot-4.6.5/docs/./doc2gih
  Reason: image not found
make[2]: *** [gnuplot.gih] Trace/BPT trap: 5
make[1]: *** [all-recursive] Error 1
make: *** [all] Error 2

READ THIS: https://github.com/Homebrew/homebrew/wiki/troubleshooting

Error: Class is not a module
Please report this bug:
    https://github.com/Homebrew/homebrew/wiki/troubleshooting
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/rubygems/core_ext/kernel_require.rb:55:in `require'
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/rubygems/core_ext/kernel_require.rb:55:in `require'
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/net/http.rb:390:in `<class:HTTP>'
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/net/http.rb:384:in `<module:Net>'
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/net/http.rb:25:in `<top (required)>'
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/rubygems/core_ext/kernel_require.rb:55:in `require'
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/rubygems/core_ext/kernel_require.rb:55:in `require'
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/net/https.rb:21:in `<top (required)>'
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/rubygems/core_ext/kernel_require.rb:55:in `require'
/System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/lib/ruby/2.0.0/rubygems/core_ext/kernel_require.rb:55:in `require'
/usr/local/Library/Homebrew/utils.rb:311:in `open'
/usr/local/Library/Homebrew/utils.rb:353:in `issues_matching'
/usr/local/Library/Homebrew/utils.rb:381:in `issues_for_formula'
/usr/local/Library/Homebrew/exceptions.rb:171:in `fetch_issues'
/usr/local/Library/Homebrew/exceptions.rb:167:in `issues'
/usr/local/Library/Homebrew/exceptions.rb:207:in `dump'
/usr/local/Library/Homebrew/cmd/upgrade.rb:84:in `rescue in upgrade_formula'
/usr/local/Library/Homebrew/cmd/upgrade.rb:92:in `upgrade_formula'
/usr/local/Library/Homebrew/cmd/upgrade.rb:43:in `block in upgrade'
/usr/local/Library/Homebrew/cmd/upgrade.rb:43:in `each'
/usr/local/Library/Homebrew/cmd/upgrade.rb:43:in `upgrade'
/usr/local/Library/brew.rb:131:in `<main>'

というか悪さしてるのはAppleのgcc LLVM clangだろ…

$ brew install gcc49

$ brew install --cc=gcc-4.9 gnuplot
==> Downloading https://downloads.sf.net/project/machomebrew/Bottles/gnuplot-4.6.5.mavericks.bottle.tar.gz
######################################################################## 100.0%
==> Pouring gnuplot-4.6.5.mavericks.bottle.tar.gz
Warning: gnuplot dependency jpeg was built with a different C++ standard
library (libstdc++ from clang). This could cause problems at runtime.
==> Caveats
AquaTerm support will only be built into Gnuplot if the standard AquaTerm
package from SourceForge has already been installed onto your system.
If you subsequently remove AquaTerm, you will need to uninstall and then
reinstall Gnuplot.
==> Summary
/usr/local/Cellar/gnuplot/4.6.5: 45 files, 4.2M

ipythonを起動すると…

******************************************************************************
libedit detected - readline will not be well behaved, including but not limited to:
   * crashes on tab completion
   * incorrect history navigation
   * corrupting long-lines
   * failure to wrap or indent lines properly
It is highly recommended that you install readline, which is easy_installable:
     easy_install readline
Note that `pip install readline` generally DOES NOT WORK, because
it installs to site-packages, which come *after* lib-dynload in sys.path,
where readline is located.  It must be `easy_install readline`, or to a custom
location on your PYTHONPATH (even --user comes after lib-dyload).
******************************************************************************

easy_install readlineすることで解消。

X11再インストール http://xquartz.macosforge.org/landing/

virtualenvもどってこい

$ python easy_install.py virtualenv

続く…かも