Can't compile on OS X Lion

[Eric Fredine]

I've been trying to install Milk on my OS X Lion machine and having trouble compiling.  I tried to resolve it by installing gcc version 4.7 from macports, but the compiler is still reporting an error.  

g++: error: unrecognized command line option '-stdlib=libc++'

Suggestions?

Thanks,

Eric

[Luis Pedro Coelho]

Hi,

You can try removing the following lines from setup.py:

if platform.system() == 'Darwin':
compiler_args.append('-stdlib=libc++')

It's very hard to keep track of all the flags that are needed for all
platforms.

HTH
Luis

On 12/11/2012 06:44 PM, Eric Fredine wrote:
> I've been trying to install Milk on my OS X Lion machine and having
> trouble compiling. I tried to resolve it by installing gcc version 4.7
> from macports, but the compiler is still reporting an error.
>

> *g++: error: unrecognized command line option '-stdlib=libc++'*
>
> Suggestions?
>
> Thanks,
> Eric
>

[Stephanie Rickett]

Eric,

Did you ever get this to work?

[Stephanie Rickett]

You should try it replacing stdlib with std.

On Tuesday, December 11, 2012 1:44:28 PM UTC-5, Eric Fredine wrote:

[Luis Pedro Coelho]

On a related note,

As part of a discussion of https://github.com/luispedro/milk/issues/8

I generated a trial package, which includes eigen as part of the source

http://luispedro.org/raw/milk-0.5-git.tar.gz

If someone confirms to me that this works on Mac OS, I will release it
on PyPI

Thanks
Luis

On 01/08/2013 02:59 PM, Stephanie Rickett wrote:
> You should try it replacing stdlib with std.
>
> On Tuesday, December 11, 2012 1:44:28 PM UTC-5, Eric Fredine wrote:
>
> I've been trying to install Milk on my OS X Lion machine and having
> trouble compiling. I tried to resolve it by installing gcc version
> 4.7 from macports, but the compiler is still reporting an error.
>

> *g++: error: unrecognized command line option '-stdlib=libc++'*
>
> Suggestions?
>
> Thanks,
> Eric
>

[Norman Vine]

On Jan 8, 2013, at 10:15 AM, Luis Pedro Coelho <lu...@luispedro.org> wrote:

On a related note,

As part of a discussion of https://github.com/luispedro/milk/issues/8

I generated a trial package, which includes eigen as part of the source

http://luispedro.org/raw/milk-0.5-git.tar.gz

If someone confirms to me that this works on Mac OS, I will release it on PyPI

Compiled and installed but had a few errors running the tests

OSX 10.8.2

http://pastebin.com/dEhuexiS

In [7]: from milk import tests

In [8]: tests.run()

EE...............E...........

----------------------------------------------------------------------

Ran 132 tests in 39.908s

FAILED (errors=15)

In [13]: milksets.milksets_version

Out[13]: <module 'milksets.milksets_version' from '/usr/local/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/milksets-0.1.3_git-py2.7.egg/milksets/milksets_version.pyc'>

gcc --version

i686-apple-darwin11-llvm-gcc-4.2 (GCC) 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2336.11.00)

Thanks for your great software :-)

Norman

[Norman Vine]

My previous post were the results from running inside the milk build directory

running after 'setup.py install' things are much better

eg  imports don't fail

http://pastebin.com/z5WiqhRU

In [1]: from milk import tests

 

In [2]: tests.run()

…….

======================================================================

FAIL: milk.tests.test_svm.test_platt_correction_class

----------------------------------------------------------------------

Traceback (most recent call last):

  File "/usr/local/lib/python2.7/site-packages/nose/case.py", line 197, in runTest

    self.test(*self.arg)

  File "/usr/local/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/milk-0.5_git-py2.7-macosx-10.8-x86_64.egg/milk/tests/test_svm.py", line 136, in test_platt_correction_class

    assert model.B == B

AssertionError

 

----------------------------------------------------------------------

Ran 132 tests in 54.648s

 

FAILED (failures=1)

 

In [3]:

[Mike Hughes]

I'm having similar trouble as Eric. Lots of trouble building and installing on OS X Lion, but I finally found a partial workaround.

When I try to compile milk out-of-the-box, I get this error:

unrecognized command line option '-stdlib=libc++'

This extra compiler argument doesn't seem to be supported by my version of g++ distributed with Xcode, which links to llvm-g++-4.2.  I also tried gcc47 (via macports), but it also doesn't recognize that option.

However, I found that another compiler, clang++, *does* support this option.  So I dug into /usr/bin/, unlinked g++ to the llvm compiler, and instead linked it to clang++. (NOTE: make sure you change this back if you try this).

This let me build *most* everything, but failed on lasso:

error: unable to open output file 'build/temp.macosx-10.5-i386-2.7/milk/supervised/_lasso.o': 'Error opening output file 'build/temp.macosx-10.5-i386-2.7/milk/supervised/_lasso.o''

Since I don't need lasso soon (I just need milk for kmeans), I just went ahead and commented it out in the setup.py.  Everything now builds fine and I can successfully import milk.unsupervised

However, this is a bit unsatisfactory... anybody have advice about better ways to get an OS X compiler to recognize libc++?

[Ian Mulvany]

I've just tried the suggestion of switching the compiler, and I've tried against the bare git repo, as well as the modified version of milk linked to in this thread, and I had no success. The fatal error is:

#include "eigen3/Eigen/Dense"

         ^

1 error generated.

milk/supervised/_lasso.cpp:10:10: fatal error: 'eigen3/Eigen/Dense' file not found

#include "eigen3/Eigen/Dense"

[Ian Mulvany]

In addition I have tried installing on ubuntu via Vagrant as a VM and I get the following error:

error: Command "g++ -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -fPIC -I/usr/lib/python2.6/dist-packages/numpy/core/include -I/usr/include/python2.6 -c milk/supervised/_perceptron.cpp -o build/temp.linux-i686-2.6/milk/supervised/_perceptron.o -std=c++0x" failed with exit status 1

libeigen3-dev seems unavailalbe and I am only able to install libeigen2-dev, I don't know if this is related.

On Thursday, January 17, 2013 6:42:34 AM UTC, Mike Hughes wrote:

[Luis Pedro Coelho]

I have fixed an important issue in the git version.

Unfortunately, I lost my access to PyPI so I cannot upload it :( Once this gets sorted out, I will upload it immediately.

In the meanwhile, you can try downloading from github:

https://github.com/luispedro/milk/archive/release-0.5.2.tar.gz

HTH
Luis

PS: PyPI had a password reset [http://mechanicalcat.net/richard/log/Python/PyPI_password_related_security_changes]. Unfortunately, my account was still linked to my old CMU email. I have asked for a reset, but am waiting for response.

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