dev-python/spectral-cube: initial import

Package-Manager: portage-2.3.3

1 files changed, 139 insertions, 0 deletions

diff --git a/dev-python/spectral-cube/files/spectral-cube-0.4.0-looseversion.patch b/dev-python/spectral-cube/files/spectral-cube-0.4.0-looseversion.patch
new file mode 100644
index 000000000000..42147de559a5
--- /dev/null
+++ b/dev-python/spectral-cube/files/spectral-cube-0.4.0-looseversion.patch
@@ -0,0 +1,139 @@
+From: Ole Streicher <olebole@debian.org>
+Date: Tue, 12 Jul 2016 08:54:59 +0200
+Subject: Use LooseVersion instead of StrictVersion.
+
+StrictVersion fails on numpy RCs. LooseVersion is a compromise until something better is available.
+---
+ spectral_cube/np_compat.py                |  4 ++--
+ spectral_cube/spectral_cube.py            |  4 ++--
+ spectral_cube/tests/test_masks.py         |  4 ++--
+ spectral_cube/tests/test_moments.py       |  4 ++--
+ spectral_cube/tests/test_spectral_cube.py | 10 +++++-----
+ 5 files changed, 13 insertions(+), 13 deletions(-)
+
+diff --git a/spectral_cube/np_compat.py b/spectral_cube/np_compat.py
+index e72b4d9..dd9080a 100644
+--- a/spectral_cube/np_compat.py
++++ b/spectral_cube/np_compat.py
+@@ -1,7 +1,7 @@
+ from __future__ import print_function, absolute_import, division
+ 
+ import numpy as np
+-from distutils.version import StrictVersion
++from distutils.version import LooseVersion
+ 
+ def allbadtonan(function):
+     """
+@@ -11,7 +11,7 @@ def allbadtonan(function):
+     """
+     def f(data, axis=None):
+         result = function(data, axis=axis)
+-        if StrictVersion(np.__version__) >= StrictVersion('1.9.0'):
++        if LooseVersion(np.__version__) >= LooseVersion('1.9.0'):
+             if axis is None:
+                 if np.all(np.isnan(data)):
+                     return np.nan
+diff --git a/spectral_cube/spectral_cube.py b/spectral_cube/spectral_cube.py
+index 231245d..fa61119 100644
+--- a/spectral_cube/spectral_cube.py
++++ b/spectral_cube/spectral_cube.py
+@@ -34,7 +34,7 @@ from .lower_dimensional_structures import (Projection, Slice, OneDSpectrum,
+                                            LowerDimensionalObject)
+ from .base_class import BaseNDClass, SpectralAxisMixinClass, DOPPLER_CONVENTIONS
+ 
+-from distutils.version import StrictVersion
++from distutils.version import LooseVersion
+ 
+ __all__ = ['SpectralCube', 'VaryingResolutionSpectralCube']
+ 
+@@ -2072,7 +2072,7 @@ class BaseSpectralCube(BaseNDClass, SpectralAxisMixinClass):
+         import yt
+ 
+         if ('dev' in yt.__version__ or
+-            StrictVersion(yt.__version__) >= StrictVersion('3.0')):
++            LooseVersion(yt.__version__) >= LooseVersion('3.0')):
+ 
+             from yt.frontends.fits.api import FITSDataset
+             from yt.units.unit_object import UnitParseError
+diff --git a/spectral_cube/tests/test_masks.py b/spectral_cube/tests/test_masks.py
+index 9116cb3..42a2125 100644
+--- a/spectral_cube/tests/test_masks.py
++++ b/spectral_cube/tests/test_masks.py
+@@ -14,7 +14,7 @@ from .. import (BooleanArrayMask, SpectralCube, LazyMask, LazyComparisonMask,
+                 FunctionMask, CompositeMask)
+ from ..masks import is_broadcastable_and_smaller, dims_to_skip, view_of_subset
+ 
+-from distutils.version import StrictVersion
++from distutils.version import LooseVersion
+ 
+ 
+ def test_spectral_cube_mask():
+@@ -370,7 +370,7 @@ def test_flat_mask():
+     assert np.all(cube.sum(axis=0)[mask_array] == mcube.sum(axis=0)[mask_array])
+     assert np.all(np.isnan(mcube.sum(axis=0)[~mask_array]))
+ 
+-@pytest.mark.skipif(StrictVersion(np.__version__) < StrictVersion('1.7'),
++@pytest.mark.skipif(LooseVersion(np.__version__) < LooseVersion('1.7'),
+                     reason='Numpy <1.7 does not support multi-slice indexing.')
+ def test_flat_mask_spectral():
+     cube, data = cube_and_raw('adv.fits')
+diff --git a/spectral_cube/tests/test_moments.py b/spectral_cube/tests/test_moments.py
+index 9b118fd..82eff40 100644
+--- a/spectral_cube/tests/test_moments.py
++++ b/spectral_cube/tests/test_moments.py
+@@ -1,7 +1,7 @@
+ from __future__ import print_function, absolute_import, division
+ 
+ import warnings
+-from distutils.version import StrictVersion
++from distutils.version import LooseVersion
+ 
+ import pytest
+ import numpy as np
+@@ -78,7 +78,7 @@ axis_order = pytest.mark.parametrize(('axis', 'order'),
+                                      (1, 0), (1, 1), (1, 2),
+                                      (2, 0), (2, 1), (2, 2)))
+ 
+-if StrictVersion(astropy.__version__[:3]) >= StrictVersion('1.0'):
++if LooseVersion(astropy.__version__[:3]) >= LooseVersion('1.0'):
+     # The relative error is slightly larger on astropy-dev
+     # There is no obvious reason for this.
+     rtol = 2e-7
+diff --git a/spectral_cube/tests/test_spectral_cube.py b/spectral_cube/tests/test_spectral_cube.py
+index 025e6bd..4dce3bb 100644
+--- a/spectral_cube/tests/test_spectral_cube.py
++++ b/spectral_cube/tests/test_spectral_cube.py
+@@ -4,7 +4,7 @@ import operator
+ import itertools
+ import warnings
+ import mmap
+-from distutils.version import StrictVersion, LooseVersion
++from distutils.version import LooseVersion, LooseVersion
+ 
+ # needed to test for warnings later
+ warnings.simplefilter('always', UserWarning)
+@@ -468,12 +468,12 @@ class TestNumpyMethods(BaseTest):
+         scmed = self.c.apply_numpy_function(np.median, axis=0)
+         # this checks whether numpy <=1.9.3 has a bug?
+         # as far as I can tell, np==1.9.3 no longer has this bug/feature
+-        #if StrictVersion(np.__version__) <= StrictVersion('1.9.3'):
++        #if LooseVersion(np.__version__) <= LooseVersion('1.9.3'):
+         #    # print statements added so we get more info in the travis builds
+-        #    print("Numpy version is: {0}".format(StrictVersion(np.__version__)))
++        #    print("Numpy version is: {0}".format(LooseVersion(np.__version__)))
+         #    assert np.count_nonzero(np.isnan(scmed)) == 5
+         #else:
+-        #    print("Numpy version is: {0}".format(StrictVersion(np.__version__)))
++        #    print("Numpy version is: {0}".format(LooseVersion(np.__version__)))
+         assert np.count_nonzero(np.isnan(scmed)) == 6
+ 
+         scmed = self.c.apply_numpy_function(np.nanmedian, axis=0)
+@@ -667,7 +667,7 @@ def test_read_write_rountrip(tmpdir):
+     assert cube.shape == cube.shape
+     assert_allclose(cube._data, cube2._data)
+     if (((hasattr(_wcs, '__version__')
+-          and StrictVersion(_wcs.__version__) < StrictVersion('5.9'))
++          and LooseVersion(_wcs.__version__) < LooseVersion('5.9'))
+          or not hasattr(_wcs, '__version__'))):
+         # see https://github.com/astropy/astropy/pull/3992 for reasons:
+         # we should upgrade this for 5.10 when the absolute accuracy is