So i'm new with this. I'm trying to install ruby on my mac with mountain lion.
im following this guide:http://www.moncefbelyamani.com/how-to-install-xcode-homebrew-git-rvm-ruby-on-mac/
when I put "brew doctor" I get this lot of warnings:
$ brew doctor
Warning: /Library/Frameworks/Mono.framework detected
This can be picked up by CMake's build system and likely cause the build to
fail. You may need to move this file out of the way to compile CMake.
Warning: Unbrewed dylibs were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected dylibs:
/usr/local/lib/libusb-0.1.4.dylib
/usr/local/lib/libusb-1.0.0.dylib
/usr/local/lib/libusbpp-0.1.4.dylib
Warning: Unbrewed .la files were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected .la files:
/usr/local/lib/libusb.la
/usr/local/lib/libusbpp.la
Warning: Unbrewed .pc files were found in /usr/local/lib/pkgconfig.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected .pc files:
/usr/local/lib/pkgconfig/fuse.pc
/usr/local/lib/pkgconfig/libusb.pc
Warning: Unbrewed static libraries were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected static libraries:
/usr/local/lib/libusb.a
/usr/local/lib/libusbpp.a
What should I do? What's happening?
I would recommend that you manage your ruby installations with either RVM or RBENV it will make your life much easier to manage different versions, upgrades, etc.
Use RVM. RVM allows you to install and manage multiple versions of Ruby on the same machine.
You can follow the instructions here to install RVM, and instructions here to install Ruby. The second link is an excellent beginners guide to get going with ruby-on-rails by the way.
Your Mac probably comes with Ruby 1.8.7. I like some of the features in 1.9.x, and they've recently released 2.0.0, so you may wish to upgrade. However there's no point doing work if you ain't gonna need it, so first decide whether you need a different version of Ruby right now. (And verify your current version with a ruby -v).
Assuming you need a new version, RVM and rbenv are two tools that make installing and managing (a.k.a. switching between) various Rubies and their versions very easy. Some people don't like RVM because it does some strange things (like override the definition of cd - change directory), but I find it simpler to use, and doesn't require you to remember to rehash every time. Read up on it and decide for yourself.
If you want to use RVM:
Install it (Google to find out how).
Make sure to source the script that it tells you to do in the output during the installation.
Start using it: rvm install <version> (e.g. rvm install 1.9.3), rvm use <version> (to switch between versions), rvm list (to see which Rubies you have installed), etc.
RVM has more online resources so it's be a good choice since you're starting. Pay attention to the error logs in your console and Google them, you'll probably see some quite accurate results (as the ruby install issues are common).
Related
ers!
There are several posts discussing how to react on:
brew doctor
i.e., to some warnings. See, for example:
Homebrew unbrewed files
Brew doctor - “warning: unbrewed header files were found in /usr/local/include”?
Best Practices for dealing with unbrewed files in a fresh install of homebrew
...
In my case (and I just started playing with the Homebrew on my Mac OSX), in summary it says:
Unexpected dylibs (in /usr/local/lib/)
Unexpected header files (in /usr/local/include/c++/4.9.0/, /usr/local/include/c++/5.0.0/, /usr/local/include/JAGS/, /usr/local/include/ntfs/, /usr/local/include/ntfs-3g/ etc.)
Unbrewed .la files (in /usr/local/lib/)
Unbrewed .pc files (in /usr/local/lib/pkgconfig/), which may actually list unbrewed stuffs:
/usr/local/lib/pkgconfig/fuse-ext2.pc
/usr/local/lib/pkgconfig/jags.pc
/usr/local/lib/pkgconfig/libntfs-3g.pc
/usr/local/lib/pkgconfig/libublio.pc
/usr/local/lib/pkgconfig/tcl.pc
/usr/local/lib/pkgconfig/tk.pc
and some static libraries (in /usr/local/lib/)
Thus, my question is, again, how to react? In particular, how worrisome is "collision" between Anaconda and Homebrew? Also, I am concerned about the effect on JAGS (which is not so widely used as Anaconda, but still...).
All systematic views are more then welcomed!
Many thanks, PM
Don't react unless and until your builds break.
If you try to build something with optional Python support with --with-python, Homebrew tries to use the python that's first in PATH. Those builds are very likely to fail if that python is Anaconda because of the *-config scripts it installs. Sorry! Anaconda is less likely to cause problems otherwise.
I have recently installed Hombrew on Yosemite with Xcode installed and would like to better understand what brew doctor is warning me about. I understand that these warnings are nothing to worry about (until they are) and am not asking how or whether to respond to them; but I would like to do the best I can to understand the likely causes so that I can be prepared when issues come up (and also to head off issues that others in my office may encounter on similar systems).
Are any of the items below from obvious sources on a 10.10 machine with Xcode and non-brew Fortran installed? Do any of these items ring a bell?
Warning: Some directories in /usr/local/share/man aren't writable.
This can happen if you "sudo make install" software that isn't managed
by Homebrew. If a brew tries to add locale information to one of these
directories, then the install will fail during the link step.
You should probably `chown` them:
/usr/local/share/man/de
/usr/local/share/man/de/man1
/usr/local/share/man/mann
Warning: Broken symlinks were found. Remove them with `brew prune`:
/usr/local/lib/libasan.dylib
/usr/local/lib/libatomic.dylib
/usr/local/lib/libcilkrts.dylib
/usr/local/lib/libgcc_s_ppc64.1.dylib
/usr/local/lib/libgcc_s_x86_64.1.dylib
/usr/local/lib/libgfortran.dylib
/usr/local/lib/libgmp.dylib
/usr/local/lib/libgmpxx.dylib
/usr/local/lib/libgomp.dylib
/usr/local/lib/libitm.dylib
/usr/local/lib/libmpc.dylib
/usr/local/lib/libmpfr.dylib
/usr/local/lib/libquadmath.dylib
/usr/local/lib/libssp.dylib
/usr/local/lib/libstdc++.dylib
/usr/local/lib/libubsan.dylib
/usr/local/lib/ppc64/libgfortran.2.0.0.dylib
/usr/local/lib/ppc64/libgfortran.2.dylib
/usr/local/lib/ppc64/libgfortran.dylib
/usr/local/lib/x86_64/libgfortran.2.0.0.dylib
/usr/local/lib/x86_64/libgfortran.2.dylib
/usr/local/lib/x86_64/libgfortran.dylib
Warning: "config" scripts exist outside your system or Homebrew directories.
`./configure` scripts often look for *-config scripts to determine if
software packages are installed, and what additional flags to use when
compiling and linking.
Having additional scripts in your path can confuse software installed via
Homebrew if the config script overrides a system or Homebrew provided
script of the same name. We found the following "config" scripts:
/opt/ImageMagick/bin/Magick++-config
/opt/ImageMagick/bin/Magick-config
/opt/ImageMagick/bin/MagickCore-config
/opt/ImageMagick/bin/MagickWand-config
/opt/ImageMagick/bin/Wand-config
Warning: Unbrewed header files were found in /usr/local/include.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected header files:
/usr/local/include/fakemysql.h
/usr/local/include/fakepq.h
/usr/local/include/fakesql.h
/usr/local/include/gmp.h
/usr/local/include/gmpxx.h
/usr/local/include/graphviz/arith.h
/usr/local/include/graphviz/cdt.h
/usr/local/include/graphviz/cgraph.h
/usr/local/include/graphviz/color.h
/usr/local/include/graphviz/geom.h
/usr/local/include/graphviz/graphviz_version.h
/usr/local/include/graphviz/gvc.h
/usr/local/include/graphviz/gvcext.h
/usr/local/include/graphviz/gvcjob.h
/usr/local/include/graphviz/gvcommon.h
/usr/local/include/graphviz/gvconfig.h
/usr/local/include/graphviz/gvplugin.h
/usr/local/include/graphviz/gvplugin_device.h
/usr/local/include/graphviz/gvplugin_layout.h
/usr/local/include/graphviz/gvplugin_loadimage.h
/usr/local/include/graphviz/gvplugin_render.h
/usr/local/include/graphviz/gvplugin_textlayout.h
/usr/local/include/graphviz/gvpr.h
/usr/local/include/graphviz/pack.h
/usr/local/include/graphviz/pathgeom.h
/usr/local/include/graphviz/pathplan.h
/usr/local/include/graphviz/textspan.h
/usr/local/include/graphviz/types.h
/usr/local/include/graphviz/usershape.h
/usr/local/include/graphviz/xdot.h
/usr/local/include/itcl.h
/usr/local/include/itcl2TclOO.h
/usr/local/include/itclDecls.h
/usr/local/include/itclInt.h
/usr/local/include/itclIntDecls.h
/usr/local/include/itclMigrate2TclCore.h
/usr/local/include/itclTclIntStubsFcn.h
/usr/local/include/mpc.h
/usr/local/include/mpf2mpfr.h
/usr/local/include/mpfr.h
/usr/local/include/mysqlStubs.h
/usr/local/include/odbcStubs.h
/usr/local/include/pqStubs.h
/usr/local/include/tcl.h
/usr/local/include/tclDecls.h
/usr/local/include/tclOO.h
/usr/local/include/tclOODecls.h
/usr/local/include/tclPlatDecls.h
/usr/local/include/tclThread.h
/usr/local/include/tclTomMath.h
/usr/local/include/tclTomMathDecls.h
/usr/local/include/tdbc.h
/usr/local/include/tdbcDecls.h
/usr/local/include/tdbcInt.h
/usr/local/include/tk.h
/usr/local/include/tkDecls.h
/usr/local/include/tkPlatDecls.h
Warning: Unbrewed .la files were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected .la files:
/usr/local/lib/libasan.la
/usr/local/lib/libatomic.la
/usr/local/lib/libcilkrts.la
/usr/local/lib/libgfortran.la
/usr/local/lib/libgmp.la
/usr/local/lib/libgmpxx.la
/usr/local/lib/libgomp.la
/usr/local/lib/libitm.la
/usr/local/lib/libmpc.la
/usr/local/lib/libmpfr.la
/usr/local/lib/libquadmath.la
/usr/local/lib/libssp.la
/usr/local/lib/libssp_nonshared.la
/usr/local/lib/libstdc++.la
/usr/local/lib/libsupc++.la
/usr/local/lib/libubsan.la
Warning: Unbrewed .pc files were found in /usr/local/lib/pkgconfig.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected .pc files:
/usr/local/lib/pkgconfig/libcdt.pc
/usr/local/lib/pkgconfig/libcgraph.pc
/usr/local/lib/pkgconfig/libgvc.pc
/usr/local/lib/pkgconfig/libgvpr.pc
/usr/local/lib/pkgconfig/libpathplan.pc
/usr/local/lib/pkgconfig/libxdot.pc
/usr/local/lib/pkgconfig/tcl.pc
/usr/local/lib/pkgconfig/tk.pc
Warning: Unbrewed static libraries were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected static libraries:
/usr/local/lib/libatomic.a
/usr/local/lib/libcilkrts.a
/usr/local/lib/libgfortran.a
/usr/local/lib/libgmp.a
/usr/local/lib/libgmpxx.a
/usr/local/lib/libgomp.a
/usr/local/lib/libitm.a
/usr/local/lib/libmpc.a
/usr/local/lib/libmpfr.a
/usr/local/lib/libquadmath.a
/usr/local/lib/libssp.a
/usr/local/lib/libssp_nonshared.a
/usr/local/lib/libstdc++.a
/usr/local/lib/libsupc++.a
/usr/local/lib/libtclstub8.6.a
/usr/local/lib/libtkstub8.6.a
There is a variety of warnings here, probably all with a very similar cause: having installed software from source (by compiling with configure; make; make install, or sometimes unpacking a very specific (e.g. scientific) package, such as fortran). That would be mostly software with a unix background, and the software decided to install itself in /usr/local.
I don't know your background, so I'm going to expand somewhat (I'll probably miss a few things or may have a few things (somewhat) incorrect):
In unix & linux, a piece of software is often distributed across various subdirectories, and not inside a single package (which is more Mac style). It can consist of binary that goes into /usr/local/bin/, a library with routines used by the binary that is put in /usr/local/lib/, some header file for function declarations that lives in /usr/local/include/, a manual page that is put in /usr/local/man/ or additional (e.g. configuration) data that could go into /usr/local/share/. Practically any combination can exist.
That looks a bit scattered, but it works. It does mean that pieces of different software live in the same subdirectory, as you can see form the various lists of filenames.
Note that /usr/local/ is in so far unique, that it tends to be a preferred directory to install extra software: software that the system (OS) can do without. This is also why Homebrew likes to install software there. Other software managers avoid the unix default of /usr/local/ and install in /opt/local/ (Macports) or /sw/ (Fink). But the fact that Homebrew picks the default "extra" software installation part can mean it clashes with other installed software.
Your system software lives in plain /usr/, or /System/ and /Library/, and stays out of /usr/local/; if you remove /usr/local/ completely, your system will still work.
So, with that in mind, the warnings:
Warning: Some directories in /usr/local/share/man aren't writable.
This can happen if you "sudo make install" software that isn't managed
by Homebrew. If a brew tries to add locale information to one of these
directories, then the install will fail during the link step. You
should probably chown them:
/usr/local/share/man/de
/usr/local/share/man/de/man1
/usr/local/share/man/mann
Other software installed its manual pages here, likely with the sudo command (you may simply have had a dialog asking for your password; sudo then happened under the hood). In that case, those specific directories are "owned" by "root", and not by the usual Homebrew user (your login). That would mean Homebrew can't, in a future event, not write in those directories, if it ever comes across software that likes its manual pages there, since it's not owned by the Homebrew user.
You can alleviate this by changing the permissions to yourself:
$ sudo chown -R <user>:<group> /usr/local/share/man/de
$ sudo chown -R <user>:<group> /usr/local/share/man/mann
(do an $ ls -l $HOME to find your <user> and <group> to fill in: it's the hopefully obvious columns.)
Warning: Broken symlinks were found. Remove them with `brew prune`:
A sym(bolic )link is just a pointer to a file that exist somewhere else. If it's broken, the original file doesn't exist anymore, or the symlink is pointing to the wrong place. You can see what it is pointing at by doing for example:
ls -l /usr/local/lib/libasan.dylib
The .dylib files are all dynamic libraries: library files that contain functions, and are meant to be used by other programs (but, specifically, not fully included inside that program; see later on static libraries). A broken library file is a potentially bad thing: new software that wants to use those files may think "ah, I can use this library" and then things go bad during compilation, when it turns out the file doesn't exist anymore. So, it may be wise to prune (remove) the symbolic links. (A symbolic link can normally be safely removed, even if it points correctly: it's only a pointer, the original file is left untouched.)
Warning: "config" scripts exist outside your system or Homebrew directories.
`./configure` scripts often look for *-config scripts to determine if
software packages are installed, and what additional flags to use when
compiling and linking.
Having additional scripts in your path can confuse software installed via
Homebrew if the config script overrides a system or Homebrew provided
script of the same name. We found the following "config" scripts:
configure is part of the chain to build software from source on the command line. It looks around on your system for existing libraries, and also ask for the configuration of programs using these -config scripts. Homebrew had a look around, and found such scripts outside the usual directories. Thus, configure could find multiple versions of the same config script, get confused which one to use and use the wrong one.
In this case, it's all ImageMagick stuff. Depending how you use it, you could opt to remove the entire /opt/ImageMagick/ directory (and perhaps you're then left with an empty /opt/ directory, in which case you can also remove /opt/; it's not part of the usual system).
Warning: Unbrewed header files were found in /usr/local/include.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Warning: Unbrewed .la files were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Warning: Unbrewed static libraries were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
These are all related, and related to the dynamic libraries mentioned before. The .a files are static libraries: they (also) contain often-used functions, but those files get included inside the binary when compiling software from source (thus, the binary becomes bigger than with dynamic libraries). The .h files are header files, which tell programs what the library files contain; the .la have some extra information on the .a library files.
The warning tells you that Homebrew may get confused when installing new software: perhaps it will try to use these libraries, but they happen to be the (oh so slightly) wrong version and things don't work. You don't know until you bump into it, unfortunately.
Warning: Unbrewed .pc files were found in /usr/local/lib/pkgconfig.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
pkgconfig files are similar to those config scripts mentioned earlier: they contain configuration information if you need some earlier installed software to build new software. Again, as before: versions may mismatch slightly and then things could not work as intended (it doesn't install, or crashes, or makes your computer pass the Turing test).
As for how you may have gotten all those files in /usr/local.? Probably you installed a package that puts everything in /usr/local/ as well. As mentioned, it is a default place to put things. Since it features libgfortran and libgomp, I'm inclined to think about some scientific package.
All in all, most warnings are about potential incompatibilities: Homebrew, like most package/software managers, tries to hold some grip (not too tight though) on what it installs and what is around, because backwards incompatibilities and such can mean that newly installed software from source ("brewed" software) doesn't properly install or run. As an example, Macports is more strict (at least it was years ago when I used it), and will download matching, known compatible, versions of required extra software (thus, you could end up with four different versions of a C compiler).
Homebrew tries to be lenient with respect to installed libraries and such, but it does warn you that bad things can happen, either during compilation or later on.
I'm trying get Homebrew working with Xcode Command Line Tools, and they seem to be having it out with each other... In the words of Rodney King, "Can't we all just get along?"
For some background, when I first got my Mac about a year ago, I had no idea what I was doing. I was also using macports, which was, as the Homebrew website seems to be cognizant, driving me to become a raging alcoholic. As a result, my /usr/local directory got wayyy f-ed up. Eventually, gcc and g++ stopped working, and a lot of other things were breaking. So I did a clean install of OS X, and I want my shiny new installation to stay a little more organized.
Now, I've installed Apple's Command Line Tools, and all the binaries/libraries/etc have ended up in /usr/local. That's fine, but then I try to install homebrew, and it's also putting everything in the /usr/local/ directory. When I run the command
brew doctor
I get the following output (actually, this is just a snippet, but it captures the general spirit of what Homebrew is telling me):
Warning: Unbrewed static libraries were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected static libraries:
/usr/local/lib/libatomic.a
/usr/local/lib/libgfortran.a
/usr/local/lib/libgmp.a
/usr/local/lib/libgomp.a
/usr/local/lib/libitm.a
/usr/local/lib/libmpc.a
/usr/local/lib/libmpfr.a
/usr/local/lib/libquadmath.a
/usr/local/lib/libssp.a
/usr/local/lib/libssp_nonshared.a
/usr/local/lib/libstdc++.a
/usr/local/lib/libsupc++.a
I thought I might place Homebrew in a different directory; however, the Homebrew documentation specifically warned against this. They say:
"Do yourself a favor and install to /usr/local. Some things may not build when installed elsewhere. One of the reasons Homebrew just works relative to the competition is because we recommend installing to /usr/local. Pick another prefix at your peril!"
The whole point is that I don't want to bother with micro-managing every package I install, and I don't want my filesystem to become an ungodly mess either. Anyone have any suggestions? Do I move command line tools to a different directory and add this to my $PATH? Any tips would be much appreciated.
It's a warning, and the message says why. If you later want to install a Homebrew formula that installs one of those files, it will fail, because it will decline to overwrite those files, and then you will have to delete those files, as the message says.
Specifically, those files appear to belong to an installation of gcc. You might want to research or try to remember why that was installed there. It's probably OK to just delete them and install gcc from Homebrew if you need it.
I have to run a Rails (3.0.6) app locally that requires Ruby 1.9.2 (plus Mongo). I'd like to install Ruby 1.9.2 alongside my existing 1.8.7 and be able to swap between them as necessary. I prefer installing to usr/local over Macports etc. Any recommendations? I've tried installing RVM but this has proved such a pain on OS X I'd rather avoid that too.
Is there another way of running multiple Ruby versions (maybe with a prefix like this)? I only need to switch to 1.9 for this project. Or has anyone a good solution to the known OS X/RVM install issues? Specifically, on Tiger/10.4 bash doesn't support errtrace.
Update: solved with a new RVM install script: see RVM on OS X 10.4 - possible?.
RVM really is the easiest solution, and I would highly recommend you try and work that issue out first.
The only bit of advice is to make sure you configure your PATH variable to include /usr/local/bin before everything else. In your .profile or .login (depending on your shell), you should have it towards the bottom, in case there is any other lines configuring PATH as well, and then for the Bourne shell family:
export PATH="/usr/local/bin:$PATH
or for the C shell family:
set path = (/usr/local/bin $PATH)
Running ./configure alone should make it install into /usr/local, but you can explicitly state so with
./configure --prefix=/usr/local
Install Ruby from source and it will default to /usr/local/bin. Adjust your path, the #! line, or your /usr/local/bin/ruby source.rb as necessary to switch between Apple's installation of Ruby, and the one you add.
You can force a new base directory using ./configure --prefix=/... where '...' is whatever path you want. Again, once the files are installed, you can adjust the executing Ruby with one of the above methods.
Do not attempt to remove Apple's installed Ruby. It's there for their use, not for our convenience, and Apple uses it to provide some functionality. Messing with it or removing it could break things, and you probably wouldn't notice for a while.
RE: RVM, It really is the preferred way to install a user Ruby. I have it on two Macs, and a handful of different Linux boxes and the only time I had trouble was with a secured machine behind firewalls, but I can't blame RVM for those problems when it couldn't see the internet at all. And, yes, I got it working nicely, I just had to insert the manually downloaded Ruby archives into the ~/.rvm/archives directory.
If you are having problems and want to use it, it might help to temporarily strip your startup scripts, or create a temporary user, and see what happens. Additionally, the author has been very responsive and helpful the few times I've asked him questions. Contact him at:
If you still cannot find what an answer to your question, find me 'wayneeseguin' in #rvm on irc.freenode.net:
http://webchat.freenode.net/?channels=rvm
If you download the source and compile it, it should install into /usr/local by default, or you can
./configure --prefix=/usr/local
just to be sure.
Actually, compiling and installing ruby from source is an easy way to be sure you have the latest version, especially if you use git and github:
https://github.com/ruby/ruby
I like that it installs into ~/.gem, I just wish it would stop warning me about it.
Setting a $GEM_HOME doesn't seem like a solution, since I use both gem18 and gem19 (I've got to support both), and I like that the gems for each install into ~/.gem/ruby/<version>, and when I set a $GEM_HOME gems for each get installed in the same directory.
Have you considered RVM? Especially if you play with multiple ruby versions. For me the biggest bonus is project specific gemsets with automatic switching.