search

spyder-ide / spyder

Official repository for Spyder - The Scientific Python Development Environment
https://www.spyder-ide.org
MIT License
8.22k stars 1.59k forks source link

Different Output Between Terminal IPython and Spyder: ["CompileError: command 'gcc' failed with exit status 1\n"] #5641

Closed hanif-rasyidi closed 6 years ago

hanif-rasyidi commented 6 years ago

Description of your problem

Hi,

I am currently working with an API named cocoapi that used Cython to compile .c file on Ubuntu 16.04 LTS. I can use the API flawlessly with IPython on terminal, but when run the python file on Spyder I got this error:

ImportError: Building module pycocotools._mask failed: ["CompileError: command 'gcc' failed with exit status 1\n"]

I use Anaconda 2 with Spyder 3.2.4 that installed from conda-forge channel and use all the default setting for Spyder. I tried to reinstall the Spyder from various channel but the problem is still there. Other than this error, the Spyder works without any problem. I even tried to reinstall Anaconda with the newer version of installer (after removing the old one first), but nothing change.

I already make the Python API from cocoapi, update all the Anaconda module, and make sure that the sys.path in Terminal IPython is the same with the Spyder IPython.

There is no problem when running the code on IPhython on Terminal, so it should be no problem on Spyder's IPython right? Or is there any hidden setting that I need to change?

What steps will reproduce the problem?

  1. Download cocoapi from https://github.com/cocodataset/cocoapi
  2. Make the Python API
  3. In IPython console import the api from pycocotools.coco import COCO
  4. Compare Terminal IPhython with Spyder IPython

What is the expected output? What do you see instead? This is the output of importing the code on IPython on terminal. The import worked.

Python 2.7.13 |Anaconda custom (64-bit)| (default, Dec 20 2016, 23:09:15) 
Type "copyright", "credits" or "license" for more information.

IPython 5.3.0 -- An enhanced Interactive Python.
?         -> Introduction and overview of IPython's features.
%quickref -> Quick reference.
help      -> Python's own help system.
object?   -> Details about 'object', use 'object??' for extra details.

In [1]: from pycocotools.coco import COCO

In [2]:

And this is when I ran the sample code on Spyder (the first line of the sample code is the same import as the above code).

Python 2.7.13 |Anaconda custom (64-bit)| (default, Dec 20 2016, 23:09:15)
Type "copyright", "credits" or "license" for more information.

IPython 5.3.0 -- An enhanced Interactive Python.
?         -> Introduction and overview of IPython's features.
%quickref -> Quick reference.
help      -> Python's own help system.
object?   -> Details about 'object', use 'object??' for extra details.

runfile('/home/hanifr/Desktop/coco-master-linux/PythonAPI/tes_coco.py', wdir='/home/hanifr/Desktop/coco-master-linux/PythonAPI')
Traceback (most recent call last):

  File "<ipython-input-1-c69dfad89653>", line 1, in <module>
    runfile('/home/hanifr/Desktop/coco-master-linux/PythonAPI/tes_coco.py', wdir='/home/hanifr/Desktop/coco-master-linux/PythonAPI')

  File "/home/hanifr/anaconda2/lib/python2.7/site-packages/spyder/utils/site/sitecustomize.py", line 710, in runfile
    execfile(filename, namespace)

  File "/home/hanifr/anaconda2/lib/python2.7/site-packages/spyder/utils/site/sitecustomize.py", line 93, in execfile
    builtins.execfile(filename, *where)

  File "/home/hanifr/Desktop/coco-master-linux/PythonAPI/tes_coco.py", line 1, in <module>
    from pycocotools.coco import COCO

  File "pycocotools/coco.py", line 55, in <module>
    from . import mask as maskUtils

  File "pycocotools/mask.py", line 3, in <module>
    import pycocotools._mask as _mask

  File "/home/hanifr/anaconda2/lib/python2.7/site-packages/pyximport/pyximport.py", line 458, in load_module
    language_level=self.language_level)

  File "/home/hanifr/anaconda2/lib/python2.7/site-packages/pyximport/pyximport.py", line 233, in load_module
    exec("raise exc, None, tb", {'exc': exc, 'tb': tb})

  File "/home/hanifr/anaconda2/lib/python2.7/site-packages/pyximport/pyximport.py", line 215, in load_module
    inplace=build_inplace, language_level=language_level)

  File "/home/hanifr/anaconda2/lib/python2.7/site-packages/pyximport/pyximport.py", line 191, in build_module
    reload_support=pyxargs.reload_support)

  File "/home/hanifr/anaconda2/lib/python2.7/site-packages/pyximport/pyxbuild.py", line 102, in pyx_to_dll
    dist.run_commands()

  File "/home/hanifr/anaconda2/lib/python2.7/distutils/dist.py", line 953, in run_commands
    self.run_command(cmd)

  File "/home/hanifr/anaconda2/lib/python2.7/distutils/dist.py", line 972, in run_command
    cmd_obj.run()

  File "/home/hanifr/anaconda2/lib/python2.7/site-packages/Cython/Distutils/old_build_ext.py", line 185, in run
    _build_ext.build_ext.run(self)

  File "/home/hanifr/anaconda2/lib/python2.7/distutils/command/build_ext.py", line 340, in run
    self.build_extensions()

  File "/home/hanifr/anaconda2/lib/python2.7/site-packages/Cython/Distutils/old_build_ext.py", line 193, in build_extensions
    self.build_extension(ext)

  File "/home/hanifr/anaconda2/lib/python2.7/distutils/command/build_ext.py", line 499, in build_extension
    depends=ext.depends)

  File "/home/hanifr/anaconda2/lib/python2.7/distutils/ccompiler.py", line 574, in compile
    self._compile(obj, src, ext, cc_args, extra_postargs, pp_opts)

  File "/home/hanifr/anaconda2/lib/python2.7/distutils/unixccompiler.py", line 124, in _compile
    raise CompileError, msg

ImportError: Building module pycocotools._mask failed: ["CompileError: command 'gcc' failed with exit status 1\n"]

Please provide any additional information below I once using the default Python with Spyder2 from apt-get. The code is actually worked in that setup, but I then decided to use Anaconda with in built Spyder because I need the other module. I make sure to remove and purge the previous Spyder installation before starting to install Anaconda's Spyder.

Versions and main components

Dependencies

IPython >=4.0;<6.0: 5.4.1 (OK) cython >=0.21 : 0.26.1 (OK) jedi >=0.9.0 : 0.10.2 (OK) nbconvert >=4.0 : 5.3.1 (OK) numpy >=1.7 : 1.13.3 (OK) pandas >=0.13.1 : 0.20.3 (OK) psutil >=0.3 : 5.4.0 (OK) pycodestyle >=2.3 : 2.3.1 (OK) pyflakes >=0.5.0 : 1.6.0 (OK) pygments >=2.0 : 2.2.0 (OK) pylint >=0.25 : 1.7.4 (OK) qtconsole >=4.2.0 : 4.3.1 (OK) rope >=0.9.4 : 0.10.5 (OK) sphinx >=0.6.6 : 1.6.3 (OK) sympy >=0.7.3 : 1.1.1 (OK)

Thanks

ccordoba12 commented 6 years ago

Thanks for reporting. This is a duplicate of issue #5299, and there you'll find a temporary solution.

We'll fix this problem in 3.2.5.

noobgrow commented 5 years ago

totally same question for me with spyder in Python 3.6.4 |Anaconda,