where can i get emd.c

[tinman6]

When I run pip install pyemd, it's erroring out on x86_64-linux-gnu-gcc: error: pyemd/emd.c: No such file or directory. Is there some external dependency? Thanks.

[wmayner]

I can't reproduce this.

When I run pip install pyemd in a fresh Python 3 virtual environment on Ubuntu 14.04.5, it installs successfully. The source distribution on PyPI (pyemd-0.3.0.tar.gz) does contain pyemd/emd.cpp, and installing from source with python setup.py install into a fresh virtual environment works as well.

Could give me more information about your system and Python environment?

[tinman6]

I am running a Python 2.7.6 virtualenv on Mint 17.1 (Ubuntu 14.04.1). Thanks for looking into this.

Here is the output:

running build_ext
building 'pyemd.emd' extension
creating build/temp.linux-x86_64-2.7
creating build/temp.linux-x86_64-2.7/pyemd
x86_64-linux-gnu-gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/include/python2.7 -I/home/user/devel/env/proj/local/lib/python2.7/site-packages/numpy/core/include -c pyemd/emd.c -o build/temp.linux-x86_64-2.7/pyemd/emd.o
x86_64-linux-gnu-gcc: error: pyemd/emd.c: No such file or directory
x86_64-linux-gnu-gcc: fatal error: no input files
compilation terminated.
error: command 'x86_64-linux-gnu-gcc' failed with exit status 4`

[wmayner]

I still can't reproduce the error. It installed successfully both with pip and from source in a Python 2.7.6 virtual environment on Ubuntu 14.04.5.

[tinman6]

Thanks for looking into this.

[wmayner]

Did you get it to work? Happy to look into it further if it's still not installing, but I'll need more information.

[samjosephmark]

@tinman6 did you find a solution for this? I'm seeing the same issue.

[tinman6]

@samjosephmark unfortunately, no.

[samjosephmark]

After upgrading setuptools to the latest version
pip install setuptools==25.2.0
pyemd did finish building, previously I had v2.2.0 in my virtualenv.

[wmayner]

That explains it. @tinman6, try upgrading pip to the latest version before installing.

[tinman6]

Upgrading setuptools worked. Thanks @samjosephmark!

[rupenp]

This is still a problem in Mac OS X

[wmayner]

Can you provide more information about your environment? What is the output of pip freeze and what version of pip are you using?

[fanglinchen]

@rupenp same here

[wmayner]

@chentc, I can't help either of you without more information about your environment.

[DataTerminatorX]

Hi @wmayner , I also encountered the same problem.

I run pip install pyemd succesfully on mac osX and ubuntu 14.04. However, I met gcc problem when I use the same command on red hat 4 x86_64

The installation and error information is

Installing collected packages: pyemd
  Running setup.py install for pyemd ... error
    Complete output from command /usr/local/bin/python3.5 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-ejog1pc0/pyemd/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-8qtisoh6-record/install-record.txt --single-version-externally-managed --compile:
    running install
    running build
    running build_py
    creating build
    creating build/lib.linux-x86_64-3.5
    creating build/lib.linux-x86_64-3.5/pyemd
    copying pyemd/__init__.py -> build/lib.linux-x86_64-3.5/pyemd
    copying pyemd/__about__.py -> build/lib.linux-x86_64-3.5/pyemd
    running build_ext
    building 'pyemd.emd' extension
    creating build/temp.linux-x86_64-3.5
    creating build/temp.linux-x86_64-3.5/pyemd
    gcc -pthread -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/usr/local/include/python3.5m -I/usr/local/lib/python3.5/site-packages/numpy/core/include -c pyemd/emd.cpp -o build/temp.linux-x86_64-3.5/pyemd/emd.o
    gcc: error trying to exec 'cc1plus': execvp: No such file or directory
    error: command 'gcc' failed with exit status 1

I've tried some methods below but failed, the error kept the same.

1. yum update and yum install gcc to update yum and gcc
2. pip install "git+https://github.com/wmayner/pyemd@develop#egg=pyemd" to install development version
3. update setuptools to the latest version 35.0.2
4. use pip3 install pyemd in python3 environment

[wmayner]

Ok, thanks for the info. Unfortunately I don't have access to a RedHat installation so I'm pretty limited in my ability to help.

However, one thing you could try is running pip install cython before trying to install pyemd. The setup file tries two different methods of installing the C++ extensions depending on whether Cython is available or not.