MACS2 install issue about macs

[taoliu]

Could you post the entire error message?

Thanks,
Tao

On Mar 27, 2014, at 4:47 PM, dphansti [email protected] wrote:

I am trying to install MACS2 on a computer running OSX 10.9.2. I have Python 2.7.5 and numpy is properly installed. I get the error message below whether i use easy_install or when i download from pypi (and do python setup.py install). Any help would be appreciated. Thanks.

easy_install MACS2

...

clang: error: unknown argument: '-mno-fused-madd' [-Wunused-command-line-argument-hard-error-in-future]

clang: note: this will be a hard error (cannot be downgraded to a warning) in the future

error: Setup script exited with error: command 'cc' failed with exit status 1

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[dphansti]

Sure. Here it is:

Searching for MACS2
Reading http://pypi.python.org/simple/MACS2/
Best match: MACS2 2.0.10.20131216
Downloading https://pypi.python.org/packages/source/M/MACS2/MACS2-2.0.10.20131216.tar.gz#md5=930bfb0711ca289ce56cf7943d838120
Processing MACS2-2.0.10.20131216.tar.gz
Running MACS2-2.0.10.20131216/setup.py -q bdist_egg --dist-dir /tmp/easy_install-Bnik4P/MACS2-2.0.10.20131216/egg-dist-tmp-uIYYEo
clang: error: unknown argument: '-mno-fused-madd' [-Wunused-command-line-argument-hard-error-in-future]
clang: note: this will be a hard error (cannot be downgraded to a warning) in the future
error: Setup script exited with error: command 'cc' failed with exit status 1

[dphansti]

Here is the error I get when using 'python setup.py install'

/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/distutils/dist.py:267: UserWarning: Unknown distribution option: 'install_requires'
warnings.warn(msg)
running install
running build
running build_py
running build_ext
building 'MACS2.cProb' extension
cc -fno-strict-aliasing -fno-common -dynamic -arch x86_64 -arch i386 -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -mno-fused-madd -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -fwrapv -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch x86_64 -arch i386 -pipe -I/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/numpy/core/include -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c MACS2/cProb.c -o build/temp.macosx-10.9-intel-2.7/MACS2/cProb.o
clang: error: unknown argument: '-mno-fused-madd' [-Wunused-command-line-argument-hard-error-in-future]
clang: note: this will be a hard error (cannot be downgraded to a warning) in the future
error: command 'cc' failed with exit status 1

[benjschiller]

Looks this is relevant
https://support.enthought.com/entries/26184115-GCC-Clang-and-Cython-in-OS-X-10-9-Mavericks

It seems they've removed support for gcc in 10.9

You might have to install gcc manually or w/ something like brew. I would
try the flags suggested in the article above and see if they help. I have a
laptop running 10.9 for work, so I could try debugging it later if you
can't figure it out.

Please let us know if you get it working!

Ben

On Thu, Mar 27, 2014 at 1:57 PM, dphansti [email protected] wrote:

Here is the error I get when using 'python setup.py install'

/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/distutils/dist.py:267:
UserWarning: Unknown distribution option: 'install_requires'
warnings.warn(msg)
running install
running build
running build_py
running build_ext
building 'MACS2.cProb' extension
cc -fno-strict-aliasing -fno-common -dynamic -arch x86_64 -arch i386 -g
-Os -pipe -fno-common -fno-strict-aliasing -fwrapv -mno-fused-madd
-DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes
-Wshorten-64-to-32 -DNDEBUG -g -fwrapv -Os -Wall -Wstrict-prototypes
-DENABLE_DTRACE -arch x86_64 -arch i386 -pipe
-I/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/numpy/core/include
-I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7
-c MACS2/cProb.c -o build/temp.macosx-10.9-intel-2.7/MACS2/cProb.o

clang: error: unknown argument: '-mno-fused-madd'
[-Wunused-command-line-argument-hard-error-in-future]
clang: note: this will be a hard error (cannot be downgraded to a warning)
in the future
error: command 'cc' failed with exit status 1

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[dphansti]

Thanks Ben. I really have no idea where to add those flags to. But I tried the following and still got the same error.

cc -fno-strict-aliasing -fno-common -dynamic -arch x86_64 -arch i386 -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -mno-fused-madd -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -fwrapv -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch x86_64 -arch i386 -pipe -I/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/numpy/core/include -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c MACS2/cProb.c -o build/temp.macosx-10.9-intel-2.7/MACS2/cProb.o -stdlib=libstdc++ -mmacosx-version-min=10.6

clang: error: unknown argument: '-mno-fused-madd' [-Wunused-command-line-argument-hard-error-in-future]
clang: note: this will be a hard error (cannot be downgraded to a warning) in the future

[dphansti]

Has anyone had success installing on OSX 10.9 yet. I still cant get it to work.

[taoliu]

Check this page:

http://stackoverflow.com/questions/22313407/clang-error-unknown-argument-mno-fused-madd-python-package-installation-fa

Before you run ‘pip install MACS2’, do this first:

$ export CFLAGS=-Qunused-arguments
$ export CPPFLAGS=-Qunused-arguments

If you need do use ’sudo’ to install MAC2, do this:

$ sudo -E pip install MACS2

Tao

On Apr 4, 2014, at 1:34 PM, dphansti [email protected] wrote:

Has anyone had success installing on OSX 10.9 yet. I still cant get it to work.

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[dphansti]

Great. That seemed to work. Thanks.