failed to build version 0.12

Hello, Thank you for this new version of scikit-image. I met the following message when i try to upgrade scikit-image (linux): $ pip install --upgrade scikit-image Collecting scikit-image Using cached scikit-image-0.12.0.tar.gz Complete output from command python setup.py egg_info: Partial import of skimage during the build process. Traceback (most recent call last): File "<string>", line 1, in <module> File "/tmp/pip-build-rR00uc/scikit-image/setup.py", line 146, in <module> **extra File "/usr/lib/python2.7/site-packages/numpy/distutils/core.py", line 135, in setup config = configuration() File "/tmp/pip-build-rR00uc/scikit-image/setup.py", line 69, in configuration config.add_subpackage('skimage') File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage caller_level = 2) File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage caller_level = caller_level + 1) File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py config = setup_module.configuration(*args) File "skimage/setup.py", line 21, in configuration config.add_subpackage('morphology') File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage caller_level = 2) File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage caller_level = caller_level + 1) File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py config = setup_module.configuration(*args) File "skimage/morphology/setup.py", line 19, in configuration cython(['_skeletonize_3d_cy.pyx.in'], working_path=base_path) File "skimage/_build.py", line 39, in cython if not _changed(pyxfile): File "skimage/_build.py", line 70, in _changed with open(filename, 'rb') as f: IOError: [Errno 2] No such file or directory: '/tmp/pip-build-rR00uc/scikit-image/skimage/morphology/_skeletonize_3d_cy.pyx.in' I got the same message working with sudo or from a virtual env. Best regards jean-patrick

Hi Jean-Patrick On 7 March 2016 at 00:06, Jean-Patrick Pommier <jeanpatrick.pommier@gmail.com> wrote:
'/tmp/pip-build-rR00uc/scikit-image/skimage/morphology/_skeletonize_3d_cy.pyx.in'
scikit-image now requires a newer version of Cython to build. See: https://github.com/scikit-image/scikit-image/blob/master/DEPENDS.txt#L5 Best regards Stéfan

Thank you! Successfully built scikit-image dask toolz Installing collected packages: toolz, dask, scikit-image Found existing installation: scikit-image 0.11.3 Not uninstalling scikit-image at /usr/lib/python2.7/site-packages, outside environment /home/jeanpat/Developpements/DIP4FISH Successfully installed dask-0.8.0 scikit-image-0.12.1 toolz-0.7.4 (DIP4FISH)[jeanpat@dip4fish ~]$ python2 Python 2.7.11 (default, Dec 6 2015, 15:43:46) [GCC 5.2.0] on linux2 Type "help", "copyright", "credits" or "license" for more information.
import skimage print skimage.__version__ 0.12.1
Le lundi 7 mars 2016 09:06:38 UTC+1, Jean-Patrick Pommier a écrit :
Hello,
Thank you for this new version of scikit-image.
I met the following message when i try to upgrade scikit-image (linux):
$ pip install --upgrade scikit-image Collecting scikit-image Using cached scikit-image-0.12.0.tar.gz Complete output from command python setup.py egg_info: Partial import of skimage during the build process. Traceback (most recent call last): File "<string>", line 1, in <module> File "/tmp/pip-build-rR00uc/scikit-image/setup.py", line 146, in <module> **extra File "/usr/lib/python2.7/site-packages/numpy/distutils/core.py", line 135, in setup config = configuration() File "/tmp/pip-build-rR00uc/scikit-image/setup.py", line 69, in configuration config.add_subpackage('skimage') File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py" , line 1002, in add_subpackage caller_level = 2) File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py" , line 971, in get_subpackage caller_level = caller_level + 1) File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py" , line 908, in _get_configuration_from_setup_py config = setup_module.configuration(*args) File "skimage/setup.py", line 21, in configuration config.add_subpackage('morphology') File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py" , line 1002, in add_subpackage caller_level = 2) File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py" , line 971, in get_subpackage caller_level = caller_level + 1) File "/usr/lib/python2.7/site-packages/numpy/distutils/misc_util.py" , line 908, in _get_configuration_from_setup_py config = setup_module.configuration(*args) File "skimage/morphology/setup.py", line 19, in configuration cython(['_skeletonize_3d_cy.pyx.in'], working_path=base_path) File "skimage/_build.py", line 39, in cython if not _changed(pyxfile): File "skimage/_build.py", line 70, in _changed with open(filename, 'rb') as f: IOError: [Errno 2] No such file or directory: '/tmp/pip-build-rR00uc/scikit-image/skimage/morphology/_ skeletonize_3d_cy.pyx.in'
I got the same message working with sudo or from a virtual env.
Best regards jean-patrick
participants (2)
-
Jean-Patrick Pommier
-
Stéfan van der Walt