Merge pull request #1627 from oesteban/enh/MigrateToSetuptools

[ENH] Abandon distutils

Author: satra

.travis.yml

@@ -6,9 +6,9 @@ python:
 - 3.4
 - 3.5
 env:
-- INSTALL_DEB_DEPENDECIES=true
-- INSTALL_DEB_DEPENDECIES=false
-- INSTALL_DEB_DEPENDECIES=true DUECREDIT_ENABLE=yes
+- INSTALL_DEB_DEPENDECIES=true NIPYPE_EXTRAS="doc,tests,fmri,profiler"
+- INSTALL_DEB_DEPENDECIES=false NIPYPE_EXTRAS="doc,tests,fmri,profiler"
+- INSTALL_DEB_DEPENDECIES=true NIPYPE_EXTRAS="doc,tests,fmri,profiler,duecredit"
 before_install:
 - function bef_inst {
   wget http://repo.continuum.io/miniconda/Miniconda${TRAVIS_PYTHON_VERSION:0:1}-latest-Linux-x86_64.sh
@@ -28,16 +28,15 @@ before_install:
   export FSLOUTPUTTYPE=NIFTI_GZ; }
 - travis_retry bef_inst
 install:
+#  Add install of vtk and mayavi to test mesh (disabled): conda install -y vtk mayavi &&
 - function inst {
   conda config --add channels conda-forge &&
   conda update --yes conda &&
   conda update --all -y python=$TRAVIS_PYTHON_VERSION &&
-  conda install -y nipype matplotlib nitime &&
-  pip install python-coveralls coverage doctest-ignore-unicode &&
-  if [ ! -z "$DUECREDIT_ENABLE"]; then pip install duecredit; fi &&
+  conda install -y nipype &&
   rm -r /home/travis/miniconda/lib/python${TRAVIS_PYTHON_VERSION}/site-packages/nipype* &&
   pip install -r requirements.txt &&
-  pip install -e . &&
+  pip install -e .[$NIPYPE_EXTRAS] &&
   export COVERAGE_PROCESS_START=$(pwd)/.coveragerc &&
   export COVERAGE_DATA_FILE=$(pwd)/.coverage &&
   echo "data_file = ${COVERAGE_DATA_FILE}" >> ${COVERAGE_PROCESS_START}; }

docker/nipype_test/Dockerfile_py27

@@ -46,6 +46,6 @@ RUN pip install -r /root/src/nipype/requirements.txt
 COPY . /root/src/nipype
 RUN rm -r /usr/local/miniconda/lib/python2.7/site-packages/nipype* && \
     cd /root/src/nipype && \
-    pip install -e .
+    pip install -e .[all]
 
 CMD ["/bin/bash"]

docker/nipype_test/Dockerfile_py34

@@ -51,6 +51,6 @@ RUN pip install -r /root/src/nipype/requirements.txt
 COPY . /root/src/nipype
 RUN rm -r /usr/local/miniconda/lib/python3.4/site-packages/nipype* && \
     cd /root/src/nipype && \
-    pip install -e . 
+    pip install -e .[all]
 
 CMD ["/bin/bash"]

docker/nipype_test/Dockerfile_py35

@@ -30,7 +30,7 @@ FROM nipype/nipype_test:base-0.0.2
 MAINTAINER The nipype developers https://github.com/nipy/nipype
 
 WORKDIR /root
-   
+
 COPY docker/circleci/run_* /usr/bin/
 RUN chmod +x /usr/bin/run_*
 
@@ -49,6 +49,6 @@ RUN pip install -r /root/src/nipype/requirements.txt
 COPY . /root/src/nipype
 RUN rm -r /usr/local/miniconda/lib/python3.5/site-packages/nipype* && \
     cd /root/src/nipype && \
-    pip install -e . 
+    pip install -e .[all]
 
 CMD ["/bin/bash"]

nipype/info.py

@@ -48,49 +48,47 @@ def get_nipype_gitversion():
     if gitversion:
         _version_extra = '-' + gitversion + '.dev'
 
-# Format expected by setup.py and doc/source/conf.py: string of form "X.Y.Z"
-__version__ = "%s.%s.%s%s" % (_version_major,
+# Format expected by setup.py and doc/source/conf.py: string of form 'X.Y.Z'
+__version__ = '%s.%s.%s%s' % (_version_major,
                               _version_minor,
                               _version_micro,
                               _version_extra)
 
-CLASSIFIERS = ["Development Status :: 5 - Production/Stable",
-               "Environment :: Console",
-               "Intended Audience :: Science/Research",
-               "License :: OSI Approved :: Apache Software License",
-               "Operating System :: MacOS :: MacOS X",
-               "Operating System :: POSIX :: Linux",
-               "Programming Language :: Python :: 2.7",
-               "Programming Language :: Python :: 3.4",
-               "Programming Language :: Python :: 3.5",
-               "Topic :: Scientific/Engineering"]
+CLASSIFIERS = ['Development Status :: 5 - Production/Stable',
+               'Environment :: Console',
+               'Intended Audience :: Science/Research',
+               'License :: OSI Approved :: Apache Software License',
+               'Operating System :: MacOS :: MacOS X',
+               'Operating System :: POSIX :: Linux',
+               'Programming Language :: Python :: 2.7',
+               'Programming Language :: Python :: 3.4',
+               'Programming Language :: Python :: 3.5',
+               'Topic :: Scientific/Engineering']
 
 description = 'Neuroimaging in Python: Pipelines and Interfaces'
 
 # Note: this long_description is actually a copy/paste from the top-level
 # README.txt, so that it shows up nicely on PyPI.  So please remember to edit
 # it only in one place and sync it correctly.
-long_description = \
-    """
-========================================================
+long_description = """========================================================
 NIPYPE: Neuroimaging in Python: Pipelines and Interfaces
 ========================================================
 
-Current neuroimaging software offer users an incredible opportunity to
-analyze data using a variety of different algorithms. However, this has
-resulted in a heterogeneous collection of specialized applications
+Current neuroimaging software offer users an incredible opportunity to \
+analyze data using a variety of different algorithms. However, this has \
+resulted in a heterogeneous collection of specialized applications \
 without transparent interoperability or a uniform operating interface.
 
-*Nipype*, an open-source, community-developed initiative under the
-umbrella of NiPy_, is a Python project that provides a uniform interface
-to existing neuroimaging software and facilitates interaction between
-these packages within a single workflow. Nipype provides an environment
-that encourages interactive exploration of algorithms from different
-packages (e.g., AFNI, ANTS, BRAINS, BrainSuite, Camino, FreeSurfer, FSL, MNE,
-MRtrix, MNE, Nipy, Slicer, SPM), eases the design of workflows within and
-between packages, and reduces the learning curve necessary to use different
-packages. Nipype is creating a collaborative platform for neuroimaging software
-development in a high-level language and addressing limitations of existing
+*Nipype*, an open-source, community-developed initiative under the \
+umbrella of NiPy_, is a Python project that provides a uniform interface \
+to existing neuroimaging software and facilitates interaction between \
+these packages within a single workflow. Nipype provides an environment \
+that encourages interactive exploration of algorithms from different \
+packages (e.g., AFNI, ANTS, BRAINS, BrainSuite, Camino, FreeSurfer, FSL, MNE, \
+MRtrix, MNE, Nipy, Slicer, SPM), eases the design of workflows within and \
+between packages, and reduces the learning curve necessary to use different \
+packages. Nipype is creating a collaborative platform for neuroimaging software \
+development in a high-level language and addressing limitations of existing \
 pipeline systems.
 
 *Nipype* allows you to:
@@ -116,33 +114,58 @@ def get_nipype_gitversion():
 PROV_MIN_VERSION = '1.4.0'
 
 NAME = 'nipype'
-MAINTAINER = "nipype developers"
-MAINTAINER_EMAIL = "[email protected]"
+MAINTAINER = 'nipype developers'
+MAINTAINER_EMAIL = '[email protected]'
 DESCRIPTION = description
 LONG_DESCRIPTION = long_description
-URL = "http://nipy.org/nipype"
-DOWNLOAD_URL = "http://github.com/nipy/nipype/archives/master"
-LICENSE = "Apache License, 2.0"
+URL = 'http://nipy.org/nipype'
+DOWNLOAD_URL = 'http://github.com/nipy/nipype/archives/master'
+LICENSE = 'Apache License, 2.0'
 CLASSIFIERS = CLASSIFIERS
-AUTHOR = "nipype developers"
-AUTHOR_EMAIL = "[email protected]"
-PLATFORMS = "OS Independent"
+AUTHOR = 'nipype developers'
+AUTHOR_EMAIL = '[email protected]'
+PLATFORMS = 'OS Independent'
 MAJOR = _version_major
 MINOR = _version_minor
 MICRO = _version_micro
 ISRELEASE = _version_extra == ''
 VERSION = __version__
 PROVIDES = ['nipype']
-REQUIRES = ["nibabel>=%s" % NIBABEL_MIN_VERSION,
-            "networkx>=%s" % NETWORKX_MIN_VERSION,
-            "numpy>=%s" % NUMPY_MIN_VERSION,
-            "python-dateutil>=%s" % DATEUTIL_MIN_VERSION,
-            "scipy>=%s" % SCIPY_MIN_VERSION,
-            "traits>=%s" % TRAITS_MIN_VERSION,
-            "nose>=%s" % NOSE_MIN_VERSION,
-            "future>=%s" % FUTURE_MIN_VERSION,
-            "simplejson>=%s" % SIMPLEJSON_MIN_VERSION,
-            "prov>=%s" % PROV_MIN_VERSION,
-            "mock",
-            "xvfbwrapper"]
+REQUIRES = [
+    'nibabel>=%s' % NIBABEL_MIN_VERSION,
+    'networkx>=%s' % NETWORKX_MIN_VERSION,
+    'numpy>=%s' % NUMPY_MIN_VERSION,
+    'python-dateutil>=%s' % DATEUTIL_MIN_VERSION,
+    'scipy>=%s' % SCIPY_MIN_VERSION,
+    'traits>=%s' % TRAITS_MIN_VERSION,
+    'future>=%s' % FUTURE_MIN_VERSION,
+    'simplejson>=%s' % SIMPLEJSON_MIN_VERSION,
+    'prov>=%s' % PROV_MIN_VERSION,
+    'xvfbwrapper',
+    'funcsigs'
+]
+
+TESTS_REQUIRES = [
+    'nose>=%s' % NOSE_MIN_VERSION,
+    'mock',
+    'codecov',
+    'doctest-ignore-unicode',
+    'dipy',
+    'nipy',
+    'matplotlib'
+]
+
+EXTRA_REQUIRES = {
+    'doc': ['Sphinx>=0.3', 'matplotlib', 'pydotplus'],
+    'tests': TESTS_REQUIRES,
+    'fmri': ['nitime', 'nilearn', 'dipy', 'nipy', 'matplotlib'],
+    'profiler': ['psutil'],
+    'duecredit': ['duecredit'],
+    # 'mesh': ['mayavi']  # Enable when it works
+}
+
+# Enable a handle to install all extra dependencies at once
+EXTRA_REQUIRES['all'] = [val for _, val in list(EXTRA_REQUIRES.items())]
+
 STATUS = 'stable'
+