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install fails on OSX with XCode 5.1 #324

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bassdread opened this issue May 12, 2014 · 2 comments
Closed

install fails on OSX with XCode 5.1 #324

bassdread opened this issue May 12, 2014 · 2 comments

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@bassdread
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sudo pip install biopython

Results in

clang -fno-strict-aliasing -fno-common -dynamic -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 -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch i386 -arch x86_64 -pipe -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c Bio/cpairwise2module.c -o build/temp.macosx-10.8-intel-2.7/Bio/cpairwise2module.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 'clang' failed with exit status 1

Seems it's related to http://kaspermunck.github.io/2014/03/fixing-clang-error/ and update in XCode. I will have a look and see if I can fix the compiler options.

@peterjc
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peterjc commented May 12, 2014

More general than just pip, due to XCode 5.1 not being compatible with the apple provided Python:
http://lists.open-bio.org/pipermail/biopython-dev/2014-April/011240.html

@peterjc peterjc changed the title pip install fails on OSX 10.8.5 install fails on OSX with XCode 5.1 May 12, 2014
@peterjc
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peterjc commented May 26, 2014

Should be fixed as of 2ceecab - see #325

@peterjc peterjc closed this as completed May 26, 2014
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2 participants