Hmmm. Unfortunately I have no ideas right now about what is going wrong there. One question: can you try running "make clean" and then the pip command again? Sometimes I get weird behaviour where Cython files don't get rebuilt. But other than that I have no idea. I don't see this on my Linux machine. Anyone else?

On Wed, Aug 29, 2018, at 11:09 PM, Sena Agezo wrote:

These are the outputs for  pip install -e . --no-deps and build_versions.py .

 

-Sena

On Aug 28, 2018, at 2:15 PM, Mark Harfouche <mark.harfouche@gmail.com> wrote:

I meant the full output of your build pip install -e . --no-deps

On Tue, Aug 28, 2018 at 11:14 AM Mark Harfouche <mark.harfouche@gmail.com> wrote:

Hi Sena,

Please run

pip install requirements-parser
python tools/build_versions.py

Please provide the output of build_versions.py

Can you somehow post the full output of the command?

Maybe to pastebin?

Mark

On Tue, Aug 28, 2018 at 10:54 AM Sena Agezo <senaagezo@gmail.com> wrote:

Hi Juan,

Yes, I did install Cython first before attempting to “pip install -e .” 

-Sena 

On Aug 27, 2018, at 8:45 PM, Juan Nunez-Iglesias <jni@fastmail.com> wrote:

Hi Sena, thanks for wanting to contribute!

I believe you need install Cython first, and then it should work. Can you give that a try and report back?

Juan.

On Tue, Aug 28, 2018, at 7:31 AM, Sena Agezo wrote:

Hi,

I am trying to make a contribution to the scikit-image documentation. In my attempt to setup the environment after creating it, I keep getting an error(see below). This error happens when I do "pip install -e ." in the cloned scikit-image. I’m doing this on a linux machine.

error: Command "gcc -pthread -B /home/liulab/anaconda3/envs/skimage/compiler_compat -Wl,--sysroot=/ -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/tmp/pip-build-env-29p1x6uy/lib/python3.6/site-packages/numpy/core/include -I/tmp/pip-build-env-29p1x6uy/lib/python3.6/site-packages/numpy/core/include -I/home/liulab/anaconda3/envs/skimage/include/python3.6m -I/home/liulab/anaconda3/envs/skimage/include/python3.6m -c _extrema_cy.c -o build/temp.linux-x86_64-3.6/_extrema_cy.o -MMD -MF build/temp.linux-x86_64-3.6/_extrema_cy.o.d" failed with exit status 1

    gcc: error: _extrema_cy.c: No such file or directory

    gcc: error: _extrema_cy.c: No such file or directory

    

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

Command "/home/liulab/anaconda3/envs/skimage/bin/python -c "import setuptools, tokenize;__file__='/home/liulab/Documents/scikit-image/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" develop --no-deps" failed with error code 1 in /home/liulab/Documents/scikit-image/

Please advise on what I should do to solve the issue and let me know if you have any questions.

Thanks,

Sena

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