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hagberg / planarity

Planar graph algorithms
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Planarity Build Fails under VirtualEnv on OSX 10.7 #1

Closed gregglind closed 6 years ago

gregglind commented 10 years ago
  1. Awesome job on this library generally!
  2. here is initial failure log.
  3. I will continue to debug. 

$ pip install planarity
Downloading/unpacking planarity
  Downloading planarity-0.3.1.tar.gz (212kB): 212kB downloaded
  Running setup.py (path:/Users/glind/venvs/py27/build/planarity/setup.py) egg_info for package planarity

    warning: no files found matching '*.gz' under directory 'examples'
    warning: no files found matching '*.h' under directory 'examples'
    warning: no files found matching '*.html' under directory 'doc'
    warning: no previously-included files matching '*~' found anywhere in distribution
    warning: no previously-included files matching '*.pyc' found anywhere in distribution
    warning: no previously-included files matching '.git' found anywhere in distribution
    no previously-included directories found matching 'doc/build'
Requirement already satisfied (use --upgrade to upgrade): setuptools in /Users/glind/venvs/py27/lib/python2.7/site-packages/setuptools-0.6c11-py2.7.egg (from planarity)
Installing collected packages: planarity
  Running setup.py install for planarity
    skipping 'planarity/planarity.c' Cython extension (up-to-date)
    building 'planarity.planarity' extension
    /usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/planarity.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/planarity.o
    /usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphColorVertices.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphColorVertices.o
    planarity/src/graphColorVertices.c:53:20: error: malloc.h: No such file or directory
    error: command '/usr/bin/llvm-gcc' failed with exit status 1
    Complete output from command /Users/glind/venvs/py27/Python.app/Contents/MacOS/Python -c "import setuptools, tokenize;__file__='/Users/glind/venvs/py27/build/planarity/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /var/folders/0z/4g3t_26s3gv835xswsslbn400000gp/T/pip-2Y3itf-record/install-record.txt --single-version-externally-managed --compile --install-headers /Users/glind/venvs/py27/Python.app/Contents/MacOS/../../../include/site/python2.7:
    running install

running build

running build_py

creating build

creating build/lib.macosx-10.4-x86_64-2.7

creating build/lib.macosx-10.4-x86_64-2.7/planarity

copying planarity/__init__.py -> build/lib.macosx-10.4-x86_64-2.7/planarity

copying planarity/planarity_functions.py -> build/lib.macosx-10.4-x86_64-2.7/planarity

copying planarity/planarity_networkx.py -> build/lib.macosx-10.4-x86_64-2.7/planarity

creating build/lib.macosx-10.4-x86_64-2.7/planarity/tests

copying planarity/tests/__init__.py -> build/lib.macosx-10.4-x86_64-2.7/planarity/tests

copying planarity/tests/test.py -> build/lib.macosx-10.4-x86_64-2.7/planarity/tests

copying planarity/tests/test_planarity.py -> build/lib.macosx-10.4-x86_64-2.7/planarity/tests

copying planarity/tests/test_planarity_networkx.py -> build/lib.macosx-10.4-x86_64-2.7/planarity/tests

running build_ext

skipping 'planarity/planarity.c' Cython extension (up-to-date)

building 'planarity.planarity' extension

creating build/temp.macosx-10.4-x86_64-2.7

creating build/temp.macosx-10.4-x86_64-2.7/planarity

creating build/temp.macosx-10.4-x86_64-2.7/planarity/src

/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/planarity.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/planarity.o

/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphColorVertices.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphColorVertices.o

planarity/src/graphColorVertices.c:53:20: error: malloc.h: No such file or directory

error: command '/usr/bin/llvm-gcc' failed with exit status 1

----------------------------------------
Cleaning up...
Command /Users/glind/venvs/py27/Python.app/Contents/MacOS/Python -c "import setuptools, tokenize;__file__='/Users/glind/venvs/py27/build/planarity/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /var/folders/0z/4g3t_26s3gv835xswsslbn400000gp/T/pip-2Y3itf-record/install-record.txt --single-version-externally-managed --compile --install-headers /Users/glind/venvs/py27/Python.app/Contents/MacOS/../../../include/site/python2.7 failed with error code 1 in /Users/glind/venvs/py27/build/planarity
Storing debug log for failure in /Users/glind/.pip/pip.log
gregglind commented 10 years ago

As per http://sourceforge.net/p/pysparse/patches/4/, changed #include <malloc.h> to #include <stdlib.h>. New errors are about duplicate symbols.

running build
running build_py
running build_ext
skipping 'planarity/planarity.c' Cython extension (up-to-date)
building 'planarity.planarity' extension
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/planarity.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/planarity.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphColorVertices.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphColorVertices.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphColorVertices_Extensions.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphColorVertices_Extensions.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphDFSUtils.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphDFSUtils.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphDrawPlanar.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphDrawPlanar.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphDrawPlanar_Extensions.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphDrawPlanar_Extensions.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphEmbed.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphEmbed.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphExtensions.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphExtensions.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphIO.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphIO.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphIsolator.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphIsolator.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphK23Search.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK23Search.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphK23Search_Extensions.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK23Search_Extensions.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphK33Search.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK33Search.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphK33Search_Extensions.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK33Search_Extensions.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphK4Search.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK4Search.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphK4Search_Extensions.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK4Search_Extensions.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphNonplanar.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphNonplanar.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphOuterplanarObstruction.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphOuterplanarObstruction.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphTests.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphTests.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/graphUtils.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphUtils.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/listcoll.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/listcoll.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/planarityRandomGraphs.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/planaritySpecificGraph.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/planaritySpecificGraph.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/planarityUtils.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityUtils.o
/usr/bin/llvm-gcc -fno-strict-aliasing -fno-common -dynamic -O3 -w -pipe -march=core2 -msse4 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Iplanarity/src/ -I/usr/local/Cellar/python/2.7.2/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c planarity/src/stack.c -o build/temp.macosx-10.4-x86_64-2.7/planarity/src/stack.o
/usr/bin/llvm-gcc -bundle -undefined dynamic_lookup -L/usr/local/Cellar/readline/6.2.2/lib build/temp.macosx-10.4-x86_64-2.7/planarity/planarity.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphColorVertices.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphColorVertices_Extensions.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphDFSUtils.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphDrawPlanar.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphDrawPlanar_Extensions.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphEmbed.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphExtensions.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphIO.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphIsolator.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK23Search.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK23Search_Extensions.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK33Search.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK33Search_Extensions.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK4Search.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphK4Search_Extensions.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphNonplanar.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphOuterplanarObstruction.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphTests.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/graphUtils.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/listcoll.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/planaritySpecificGraph.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityUtils.o build/temp.macosx-10.4-x86_64-2.7/planarity/src/stack.o -o build/lib.macosx-10.4-x86_64-2.7/planarity/planarity.so
duplicate symbol _Line in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planaritySpecificGraph.o
duplicate symbol _Mode in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planaritySpecificGraph.o
duplicate symbol _OrigOut in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planaritySpecificGraph.o
duplicate symbol _EmbeddableOut in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planaritySpecificGraph.o
duplicate symbol _ObstructedOut in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planaritySpecificGraph.o
duplicate symbol _AdjListsForEmbeddingsOut in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planaritySpecificGraph.o
duplicate symbol _quietMode in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planaritySpecificGraph.o
duplicate symbol _quietMode in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityUtils.o
duplicate symbol _Line in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityUtils.o
duplicate symbol _Mode in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityUtils.o
duplicate symbol _OrigOut in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityUtils.o
duplicate symbol _EmbeddableOut in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityUtils.o
duplicate symbol _ObstructedOut in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityUtils.o
duplicate symbol _AdjListsForEmbeddingsOut in:
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityRandomGraphs.o
    build/temp.macosx-10.4-x86_64-2.7/planarity/src/planarityUtils.o
ld: 14 duplicate symbols for architecture x86_64
collect2: ld returned 1 exit status
error: command '/usr/bin/llvm-gcc' failed with exit status 1
gregglind commented 10 years ago

This may be mac specific, see: http://samwho.co.uk/blog/2013/12/08/duplicate-symbol-what/

hagberg commented 10 years ago

Thanks for your input. This package wraps Boyer's C planarity code. It contains an older version of what is available at https://code.google.com/p/planarity/

Perhaps this issue you are finding is fixed in a newer version? Could you try to build the planarity code from there? If it works we can update the copy in this repository.

dalejung commented 9 years ago

hey @gregglind. so replacing malloc.h with stdlib.h removed the errors and installed successfully. Though I haven't tested it out as I'm working on other non-python related build issues atm. 

gcc --version
Configured with: --prefix=/Applications/Xcode.app/Contents/Developer/usr --with-gxx-include-dir=/usr/include/c++/4.2.1
Apple LLVM version 6.0 (clang-600.0.57) (based on LLVM 3.5svn)
Target: x86_64-apple-darwin14.1.0
Thread model: posix

I'll update once I get around to using the module :/

gregglind commented 9 years ago

Thanks for looking into it!

On Mon, Mar 30, 2015 at 3:00 PM, Dale Jung notifications@github.com wrote:

hey @gregglind https://github.com/gregglind. so replacing malloc.h with stdlib.h removed the errors and installed successfully. Though I haven't tested it out as I'm working on other non-python related build issues atm.

gcc --version Configured with: --prefix=/Applications/Xcode.app/Contents/Developer/usr --with-gxx-include-dir=/usr/include/c++/4.2.1 Apple LLVM version 6.0 (clang-600.0.57) (based on LLVM 3.5svn) Target: x86_64-apple-darwin14.1.0 Thread model: posix

I'll update once I get around to using the module :/

— Reply to this email directly or view it on GitHub https://github.com/hagberg/planarity/issues/1#issuecomment-87810389.

pedritomelenas commented 9 years ago

Any news concerning this issue? I am trying to install it (anaconda) and get the following error:

Collecting planarity
  Using cached planarity-0.3.1.tar.gz
Requirement already satisfied (use --upgrade to upgrade): setuptools in ./anaconda/lib/python3.4/site-packages/setuptools-18.3.2-py3.4.egg (from planarity)
Building wheels for collected packages: planarity
  Running setup.py bdist_wheel for planarity
  Complete output from command /Users/pedro/anaconda/bin/python3 -c "import setuptools;__file__='/private/var/folders/6y/1168f8ys4vs9m6r8_jd8hc4h0000gn/T/pip-build-fz2az358/planarity/setup.py';exec(compile(open(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" bdist_wheel -d /var/folders/6y/1168f8ys4vs9m6r8_jd8hc4h0000gn/T/tmpp0uk4fvcpip-wheel-:
  running bdist_wheel
  running build
  running build_py
  creating build
  creating build/lib.macosx-10.5-x86_64-3.4
  creating build/lib.macosx-10.5-x86_64-3.4/planarity
  copying planarity/__init__.py -> build/lib.macosx-10.5-x86_64-3.4/planarity
  copying planarity/planarity_functions.py -> build/lib.macosx-10.5-x86_64-3.4/planarity
  copying planarity/planarity_networkx.py -> build/lib.macosx-10.5-x86_64-3.4/planarity
  creating build/lib.macosx-10.5-x86_64-3.4/planarity/tests
  copying planarity/tests/__init__.py -> build/lib.macosx-10.5-x86_64-3.4/planarity/tests
  copying planarity/tests/test.py -> build/lib.macosx-10.5-x86_64-3.4/planarity/tests
  copying planarity/tests/test_planarity.py -> build/lib.macosx-10.5-x86_64-3.4/planarity/tests
  copying planarity/tests/test_planarity_networkx.py -> build/lib.macosx-10.5-x86_64-3.4/planarity/tests
  running build_ext
  skipping 'planarity/planarity.c' Cython extension (up-to-date)
  building 'planarity.planarity' extension
  creating build/temp.macosx-10.5-x86_64-3.4
  creating build/temp.macosx-10.5-x86_64-3.4/planarity
  creating build/temp.macosx-10.5-x86_64-3.4/planarity/src
  gcc -fno-strict-aliasing -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/Users/pedro/anaconda/include -arch x86_64 -Iplanarity/src/ -I/Users/pedro/anaconda/include/python3.4m -c planarity/planarity.c -o build/temp.macosx-10.5-x86_64-3.4/planarity/planarity.o
  In file included from planarity/src/graphStructures.h:53:0,
                   from planarity/planarity.c:235:
  planarity/src/graphFunctionTable.h:62:6: warning: function declaration isn't a prototype [-Wstrict-prototypes]
        int  (*fpEmbeddingInitialize)();
        ^
  planarity/src/graphFunctionTable.h:63:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpEmbedBackEdgeToDescendant)();
           ^
  planarity/src/graphFunctionTable.h:64:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpWalkUp)();
           ^
  planarity/src/graphFunctionTable.h:65:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpWalkDown)();
           ^
  planarity/src/graphFunctionTable.h:66:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpMergeBicomps)();
           ^
  planarity/src/graphFunctionTable.h:67:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpMergeVertex)();
           ^
  planarity/src/graphFunctionTable.h:68:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpHandleInactiveVertex)();
           ^
  planarity/src/graphFunctionTable.h:69:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpHandleBlockedBicomp)();
           ^
  planarity/src/graphFunctionTable.h:70:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpEmbedPostprocess)();
           ^
  planarity/src/graphFunctionTable.h:71:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpMarkDFSPath)();
           ^
  planarity/src/graphFunctionTable.h:73:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpCheckEmbeddingIntegrity)();
           ^
  planarity/src/graphFunctionTable.h:74:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpCheckObstructionIntegrity)();
           ^
  planarity/src/graphFunctionTable.h:78:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpInitGraph)();
           ^
  planarity/src/graphFunctionTable.h:79:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpReinitializeGraph)();
           ^
  planarity/src/graphFunctionTable.h:80:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpEnsureArcCapacity)();
           ^
  planarity/src/graphFunctionTable.h:81:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpSortVertices)();
           ^
  planarity/src/graphFunctionTable.h:83:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpReadPostprocess)();
           ^
  planarity/src/graphFunctionTable.h:84:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpWritePostprocess)();
           ^
  planarity/src/graphFunctionTable.h:86:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpHideEdge)();
           ^
  planarity/src/graphFunctionTable.h:87:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpRestoreEdge)();
           ^
  planarity/src/graphFunctionTable.h:88:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpHideVertex)();
           ^
  planarity/src/graphFunctionTable.h:89:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpRestoreVertex)();
           ^
  planarity/src/graphFunctionTable.h:90:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpContractEdge)();
           ^
  planarity/src/graphFunctionTable.h:91:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpIdentifyVertices)();
           ^
  planarity/planarity.c: In function '__pyx_pf_9planarity_9planarity_6PGraph___init__':
  planarity/planarity.c:1568:78: warning: assignment makes integer from pointer without a cast [-Wint-conversion]
     ((struct __pyx_obj_9planarity_9planarity_PGraph *)__pyx_v_self)->embedding = NULL;
                                                                                ^
  planarity/planarity.c: In function '__pyx_pf_9planarity_9planarity_6PGraph_8ascii':
  planarity/planarity.c:2715:34: warning: implicit declaration of function '_RenderToString' [-Wimplicit-function-declaration]
     __pyx_t_2 = PyBytes_FromString(_RenderToString(((struct __pyx_obj_9planarity_9planarity_PGraph *)__pyx_v_self)->theGraph)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
                                    ^
  planarity/planarity.c:2715:34: warning: passing argument 1 of 'PyBytes_FromString' makes pointer from integer without a cast [-Wint-conversion]
  In file included from /Users/pedro/anaconda/include/python3.4m/Python.h:76:0,
                   from planarity/planarity.c:4:
  /Users/pedro/anaconda/include/python3.4m/bytesobject.h:52:24: note: expected 'const char *' but argument is of type 'int'
   PyAPI_FUNC(PyObject *) PyBytes_FromString(const char *);
                          ^
  planarity/planarity.c: In function '__pyx_pf_9planarity_9planarity_6PGraph_9write':
  planarity/planarity.c:2746:7: warning: variable '__pyx_v_status' set but not used [-Wunused-but-set-variable]
     int __pyx_v_status;
         ^
  gcc -fno-strict-aliasing -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/Users/pedro/anaconda/include -arch x86_64 -Iplanarity/src/ -I/Users/pedro/anaconda/include/python3.4m -c planarity/src/graphColorVertices.c -o build/temp.macosx-10.5-x86_64-3.4/planarity/src/graphColorVertices.o
  In file included from planarity/src/graphStructures.h:53:0,
                   from planarity/src/graphColorVertices.h:48,
                   from planarity/src/graphColorVertices.c:45:
  planarity/src/graphFunctionTable.h:62:6: warning: function declaration isn't a prototype [-Wstrict-prototypes]
        int  (*fpEmbeddingInitialize)();
        ^
  planarity/src/graphFunctionTable.h:63:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpEmbedBackEdgeToDescendant)();
           ^
  planarity/src/graphFunctionTable.h:64:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpWalkUp)();
           ^
  planarity/src/graphFunctionTable.h:65:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpWalkDown)();
           ^
  planarity/src/graphFunctionTable.h:66:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpMergeBicomps)();
           ^
  planarity/src/graphFunctionTable.h:67:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpMergeVertex)();
           ^
  planarity/src/graphFunctionTable.h:68:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpHandleInactiveVertex)();
           ^
  planarity/src/graphFunctionTable.h:69:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpHandleBlockedBicomp)();
           ^
  planarity/src/graphFunctionTable.h:70:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpEmbedPostprocess)();
           ^
  planarity/src/graphFunctionTable.h:71:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpMarkDFSPath)();
           ^
  planarity/src/graphFunctionTable.h:73:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpCheckEmbeddingIntegrity)();
           ^
  planarity/src/graphFunctionTable.h:74:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpCheckObstructionIntegrity)();
           ^
  planarity/src/graphFunctionTable.h:78:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpInitGraph)();
           ^
  planarity/src/graphFunctionTable.h:79:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpReinitializeGraph)();
           ^
  planarity/src/graphFunctionTable.h:80:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpEnsureArcCapacity)();
           ^
  planarity/src/graphFunctionTable.h:81:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpSortVertices)();
           ^
  planarity/src/graphFunctionTable.h:83:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpReadPostprocess)();
           ^
  planarity/src/graphFunctionTable.h:84:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpWritePostprocess)();
           ^
  planarity/src/graphFunctionTable.h:86:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpHideEdge)();
           ^
  planarity/src/graphFunctionTable.h:87:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           void (*fpRestoreEdge)();
           ^
  planarity/src/graphFunctionTable.h:88:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpHideVertex)();
           ^
  planarity/src/graphFunctionTable.h:89:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpRestoreVertex)();
           ^
  planarity/src/graphFunctionTable.h:90:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpContractEdge)();
           ^
  planarity/src/graphFunctionTable.h:91:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
           int  (*fpIdentifyVertices)();
           ^
  planarity/src/graphColorVertices.c:53:20: fatal error: malloc.h: No such file or directory
   #include <malloc.h>
                      ^
  compilation terminated.
  error: command 'gcc' failed with exit status 1

  ----------------------------------------
Failed to build planarity
Installing collected packages: planarity
  Running setup.py install for planarity
    Complete output from command /Users/pedro/anaconda/bin/python3 -c "import setuptools, tokenize;__file__='/private/var/folders/6y/1168f8ys4vs9m6r8_jd8hc4h0000gn/T/pip-build-fz2az358/planarity/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /var/folders/6y/1168f8ys4vs9m6r8_jd8hc4h0000gn/T/pip-sfxehitv-record/install-record.txt --single-version-externally-managed --compile:
    running install
    running build
    running build_py
    running build_ext
    skipping 'planarity/planarity.c' Cython extension (up-to-date)
    building 'planarity.planarity' extension
    gcc -fno-strict-aliasing -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/Users/pedro/anaconda/include -arch x86_64 -Iplanarity/src/ -I/Users/pedro/anaconda/include/python3.4m -c planarity/planarity.c -o build/temp.macosx-10.5-x86_64-3.4/planarity/planarity.o
    In file included from planarity/src/graphStructures.h:53:0,
                     from planarity/planarity.c:235:
    planarity/src/graphFunctionTable.h:62:6: warning: function declaration isn't a prototype [-Wstrict-prototypes]
          int  (*fpEmbeddingInitialize)();
          ^
    planarity/src/graphFunctionTable.h:63:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpEmbedBackEdgeToDescendant)();
             ^
    planarity/src/graphFunctionTable.h:64:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpWalkUp)();
             ^
    planarity/src/graphFunctionTable.h:65:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpWalkDown)();
             ^
    planarity/src/graphFunctionTable.h:66:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpMergeBicomps)();
             ^
    planarity/src/graphFunctionTable.h:67:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpMergeVertex)();
             ^
    planarity/src/graphFunctionTable.h:68:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpHandleInactiveVertex)();
             ^
    planarity/src/graphFunctionTable.h:69:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpHandleBlockedBicomp)();
             ^
    planarity/src/graphFunctionTable.h:70:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpEmbedPostprocess)();
             ^
    planarity/src/graphFunctionTable.h:71:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpMarkDFSPath)();
             ^
    planarity/src/graphFunctionTable.h:73:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpCheckEmbeddingIntegrity)();
             ^
    planarity/src/graphFunctionTable.h:74:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpCheckObstructionIntegrity)();
             ^
    planarity/src/graphFunctionTable.h:78:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpInitGraph)();
             ^
    planarity/src/graphFunctionTable.h:79:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpReinitializeGraph)();
             ^
    planarity/src/graphFunctionTable.h:80:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpEnsureArcCapacity)();
             ^
    planarity/src/graphFunctionTable.h:81:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpSortVertices)();
             ^
    planarity/src/graphFunctionTable.h:83:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpReadPostprocess)();
             ^
    planarity/src/graphFunctionTable.h:84:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpWritePostprocess)();
             ^
    planarity/src/graphFunctionTable.h:86:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpHideEdge)();
             ^
    planarity/src/graphFunctionTable.h:87:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpRestoreEdge)();
             ^
    planarity/src/graphFunctionTable.h:88:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpHideVertex)();
             ^
    planarity/src/graphFunctionTable.h:89:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpRestoreVertex)();
             ^
    planarity/src/graphFunctionTable.h:90:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpContractEdge)();
             ^
    planarity/src/graphFunctionTable.h:91:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpIdentifyVertices)();
             ^
    planarity/planarity.c: In function '__pyx_pf_9planarity_9planarity_6PGraph___init__':
    planarity/planarity.c:1568:78: warning: assignment makes integer from pointer without a cast [-Wint-conversion]
       ((struct __pyx_obj_9planarity_9planarity_PGraph *)__pyx_v_self)->embedding = NULL;
                                                                                  ^
    planarity/planarity.c: In function '__pyx_pf_9planarity_9planarity_6PGraph_8ascii':
    planarity/planarity.c:2715:34: warning: implicit declaration of function '_RenderToString' [-Wimplicit-function-declaration]
       __pyx_t_2 = PyBytes_FromString(_RenderToString(((struct __pyx_obj_9planarity_9planarity_PGraph *)__pyx_v_self)->theGraph)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
                                      ^
    planarity/planarity.c:2715:34: warning: passing argument 1 of 'PyBytes_FromString' makes pointer from integer without a cast [-Wint-conversion]
    In file included from /Users/pedro/anaconda/include/python3.4m/Python.h:76:0,
                     from planarity/planarity.c:4:
    /Users/pedro/anaconda/include/python3.4m/bytesobject.h:52:24: note: expected 'const char *' but argument is of type 'int'
     PyAPI_FUNC(PyObject *) PyBytes_FromString(const char *);
                            ^
    planarity/planarity.c: In function '__pyx_pf_9planarity_9planarity_6PGraph_9write':
    planarity/planarity.c:2746:7: warning: variable '__pyx_v_status' set but not used [-Wunused-but-set-variable]
       int __pyx_v_status;
           ^
    gcc -fno-strict-aliasing -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/Users/pedro/anaconda/include -arch x86_64 -Iplanarity/src/ -I/Users/pedro/anaconda/include/python3.4m -c planarity/src/graphColorVertices.c -o build/temp.macosx-10.5-x86_64-3.4/planarity/src/graphColorVertices.o
    In file included from planarity/src/graphStructures.h:53:0,
                     from planarity/src/graphColorVertices.h:48,
                     from planarity/src/graphColorVertices.c:45:
    planarity/src/graphFunctionTable.h:62:6: warning: function declaration isn't a prototype [-Wstrict-prototypes]
          int  (*fpEmbeddingInitialize)();
          ^
    planarity/src/graphFunctionTable.h:63:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpEmbedBackEdgeToDescendant)();
             ^
    planarity/src/graphFunctionTable.h:64:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpWalkUp)();
             ^
    planarity/src/graphFunctionTable.h:65:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpWalkDown)();
             ^
    planarity/src/graphFunctionTable.h:66:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpMergeBicomps)();
             ^
    planarity/src/graphFunctionTable.h:67:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpMergeVertex)();
             ^
    planarity/src/graphFunctionTable.h:68:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpHandleInactiveVertex)();
             ^
    planarity/src/graphFunctionTable.h:69:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpHandleBlockedBicomp)();
             ^
    planarity/src/graphFunctionTable.h:70:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpEmbedPostprocess)();
             ^
    planarity/src/graphFunctionTable.h:71:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpMarkDFSPath)();
             ^
    planarity/src/graphFunctionTable.h:73:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpCheckEmbeddingIntegrity)();
             ^
    planarity/src/graphFunctionTable.h:74:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpCheckObstructionIntegrity)();
             ^
    planarity/src/graphFunctionTable.h:78:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpInitGraph)();
             ^
    planarity/src/graphFunctionTable.h:79:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpReinitializeGraph)();
             ^
    planarity/src/graphFunctionTable.h:80:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpEnsureArcCapacity)();
             ^
    planarity/src/graphFunctionTable.h:81:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpSortVertices)();
             ^
    planarity/src/graphFunctionTable.h:83:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpReadPostprocess)();
             ^
    planarity/src/graphFunctionTable.h:84:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpWritePostprocess)();
             ^
    planarity/src/graphFunctionTable.h:86:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpHideEdge)();
             ^
    planarity/src/graphFunctionTable.h:87:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             void (*fpRestoreEdge)();
             ^
    planarity/src/graphFunctionTable.h:88:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpHideVertex)();
             ^
    planarity/src/graphFunctionTable.h:89:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpRestoreVertex)();
             ^
    planarity/src/graphFunctionTable.h:90:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpContractEdge)();
             ^
    planarity/src/graphFunctionTable.h:91:9: warning: function declaration isn't a prototype [-Wstrict-prototypes]
             int  (*fpIdentifyVertices)();
             ^
    planarity/src/graphColorVertices.c:53:20: fatal error: malloc.h: No such file or directory
     #include <malloc.h>
                        ^
    compilation terminated.
    error: command 'gcc' failed with exit status 1

    ----------------------------------------
  Failed building wheel for planarity
Command "/Users/pedro/anaconda/bin/python3 -c "import setuptools, tokenize;__file__='/private/var/folders/6y/1168f8ys4vs9m6r8_jd8hc4h0000gn/T/pip-build-fz2az358/planarity/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /var/folders/6y/1168f8ys4vs9m6r8_jd8hc4h0000gn/T/pip-sfxehitv-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /private/var/folders/6y/1168f8ys4vs9m6r8_jd8hc4h0000gn/T/pip-build-fz2az358/planarity

Also tried from source changing malloc to stdlib. Did not work either. Thanks!

alfsan commented 9 years ago

With the next command-line it works: $ CFLAGS="-I /usr/include/malloc" pip install planarity Collecting planarity Using cached planarity-0.3.1.tar.gz Requirement already satisfied (use --upgrade to upgrade): setuptools in ./anaconda/lib/python3.4/site-packages/setuptools-18.4-py3.4.egg (from planarity) ....... Successfully built planarity Installing collected packages: planarity Successfully installed planarity-0.3.1

Unfortunatelly I tested the next example from the repository, but it fails. It works well in my Debian 8 machine.

$ python ascii.py Segmentation fault: 11

hagberg commented 9 years ago

Yes, it looks like the C code doesn't compile correctly on modern OSX. That code comes from Boyer https://code.google.com/p/planarity/ and may have been updated to address this issue. Anyone want to try to see if the C package that can compile correctly on OSX? If so then we can update things here.

hagberg commented 8 years ago

I just updated the C source here to v3.0.0.5 https://github.com/john-boyer-phd/edge-addition-planarity-suite so maybe that will resolve some of these issues?

pedritomelenas commented 8 years ago

Thanks for the update, @hagberg. However, I was not able to compile it on my mac; I had to change libtoolize to glibtoolize in autogen.sh. If you want, I can attach the logs.

I will ask @alfsan if he was able to compile it.

Thank you! Pedro

hagberg commented 8 years ago

Hi @pedritomelenas - I just changed a header bbdd0dd31b217bbc78f9423eccd7a5b49685499b and removed some unnecessary files 02ae91ae3f0a24401bf6f3db4a14f607e9e64785. With those fixes this builds and tests correctly on my OSX machine (10.11.5, homebrew). Would you try it again and report the errors?

pedritomelenas commented 8 years ago

Yes, I could install it (macports here) without problems. I tried a couple of examples and seems to work like a charm.

Thank you!