[yt-svn] Build failed in Jenkins: py2.7-yt-3.0 #53
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Fri Jul 12 09:38:36 PDT 2013
See <http://ladon:8080/job/py2.7-yt-3.0/53/changes>
Changes:
[Sam Skillman <samskillman at gmail.com>] Fixing up errors in the new cython AMRKDTree. Rendering of enzo data functional.
[Matthew Turk <matthewturk at gmail.com>] Merging from yt development branch
[Matthew Turk <matthewturk at gmail.com>] Merged in samskillman/yt (pull request #553)
Fix for grey_opacity grid line drawing
[Sam Skillman <samskillman at gmail.com>] Can't just break out or else you won't draw lines that begin outside of the image.
[Sam Skillman <samskillman at gmail.com>] Fix alpha blending in line drawing for grey_opacity=True. This now correctly
blends and renormalizes the RGB channels based on the alpha channel. Before
the color of the lines were completely over-powering the underlying rendering.
[Matthew Turk <matthewturk at gmail.com>] Merged in ngoldbaum/yt (pull request #550)
Fixing a bug that causes StaticOutput.__init__() to run twice for Stream datasets
[Nathan Goldbaum <goldbaum at ucolick.org>] Duck typing to avoid an import.
[Nathan Goldbaum <goldbaum at ucolick.org>] Merged yt_analysis/yt into yt
[Nathan Goldbaum <goldbaum at ucolick.org>] This should make it so StreamStaticOutput.__init__ only runs once.
[Matthew Turk <matthewturk at gmail.com>] Merged in ngoldbaum/yt (pull request #549)
Fixing errors discovered via pyflakes.
[Nathan Goldbaum <goldbaum at ucolick.org>] Fixing errors discovered via pyflakes.
[Britton Smith <brittonsmith at gmail.com>] Merged in ngoldbaum/yt (pull request #539)
Fixing a comment in physical_constants.py
[Nathan Goldbaum <goldbaum at ucolick.org>] Adding some explanatory text for the units of rho_crit_now.
[Nathan Goldbaum <goldbaum at ucolick.org>] Fixing the explanatory comment as well.
[Nathan Goldbaum <goldbaum at ucolick.org>] Fixing a comment in physical_constants.py
[Matthew Turk <matthewturk at gmail.com>] Merged in xarthisius/yt (pull request #543)
Sanitize library searching to take into account multiarch. Always rely on deps installed via script if YT_DEST is installed
[Kacper Kowalik <xarthisius.kk at gmail.com>] Fix spelling errors, pep8
[Kacper Kowalik <xarthisius.kk at gmail.com>] Add multiarch default dir for i386
[Kacper Kowalik <xarthisius.kk at gmail.com>] Sanitize library searching to take into account multiarch. Always rely on deps installed via script if YT_DEST is installed
[Matthew Turk <matthewturk at gmail.com>] Merged in xarthisius/yt (pull request #546)
Correct dds in covering grid for reduced dimensions in AMR data. Fixes #602
[Kacper Kowalik <xarthisius.kk at gmail.com>] Correct dds in covering grid for reduced dimensions in AMR data. Fixes #602
[J.S. Oishi <jsoishi at gmail.com>] backporting fortran_utils.py from yt-3.0
[J.S. Oishi <jsoishi at gmail.com>] removing fortran utils, so I can preserve history.
[J.S. Oishi <jsoishi at gmail.com>] backported fortran_utils from 3.0
[Nathan Goldbaum <goldbaum at ucolick.org>] Fixing a unit issue in universal_fields.py.
[Kacper Kowalik <xarthisius.kk at gmail.com>] Don't try to import distribute if setuptools>=0.7 is detected
[Nathan Goldbaum <goldbaum at ucolick.org>] Merged in samskillman/yt (pull request #540)
Quick fix to not let map_to_colormap get an out of bounds error.
[Sam Skillman <samskillman at gmail.com>] Quick fix to not let map_to_colormap get an out of bounds error.
[Noel Scudder <noel.scudder at stonybrook.edu>] Fixed an issue in volume rendering through the command line, where the camera object would default to 'Density' for its field instead of taking the supplied field.
[Nathan Goldbaum <goldbaum at ucolick.org>] Ensuring that castro domain_dimensions is a numpy array.
[Nathan Goldbaum <goldbaum at ucolick.org>] Merged in xarthisius/yt (pull request #534)
Search for hdf5 library/headers in default paths on posix systems. Fixes #597
[Kacper Kowalik <xarthisius.kk at gmail.com>] Sanitize get_location_from_ctypes
[Kacper Kowalik <xarthisius.kk at gmail.com>] Check if target_libfile is not None before trying to invoke isfile on it. Thanks to Nathan for catching this. Remove unused setuptools
[Kacper Kowalik <xarthisius.kk at gmail.com>] Return a proper tuple of header and libdir if libfile is found directly via ctypes.util. Thanks Nathan!
[Kacper Kowalik <xarthisius.kk at gmail.com>] Further refactoring of the code that checks for dependencies
[Kacper Kowalik <xarthisius.kk at gmail.com>] Add /usr/X11 to default search paths, remove duplicated code
[Kacper Kowalik <xarthisius.kk at gmail.com>] Refactor code responsible for detecting lib/include paths from env var, cfg file and by using ctypes respectively
[Kacper Kowalik <xarthisius.kk at gmail.com>] Search for hdf5 library/headers in default paths on posix systems. Fixes #597
[Matthew Turk <matthewturk at gmail.com>] Merged in MatthewTurk/yt (pull request #537)
This fixes FLASH current redshift
[Matthew Turk <matthewturk at gmail.com>] Oops, parenthesis were in the wrong place!
[Matthew Turk <matthewturk at gmail.com>] This fixes FLASH current redshift, which is not up-to-date until the second
timestep.
[Matthew Turk <matthewturk at gmail.com>] Merged in samskillman/yt (pull request #525)
Cythonize the AMRKDTree build
[Sam Skillman <samskillman at gmail.com>] Merging and resolving simple conflict
[Sam Skillman <samskillman at gmail.com>] alloca was actually not working as I expected, so I reverted to malloc. Also
fixing should_i_split for a corner case when the node_id is > 2^64. not a great
fix.
[Sam Skillman <samskillman at gmail.com>] long -> np.int64_t, malloc -> alloca. now has the memory of a fish.
[Sam Skillman <samskillman at gmail.com>] Simplifying some of the reduction logic, fixing parallel perspective renders.
The scattered image was not being returned from the finalize correctly.
[Sam Skillman <samskillman at gmail.com>] Addressing a few comments. Removed print statements. Changed image reduction to
a while loop with and else, which is pretty sweet. Removed an import * in __init__.
[Sam Skillman <samskillman at gmail.com>] Few more cleanup items. Now streamlines pass again.
[Sam Skillman <samskillman at gmail.com>] So I had broken parallel rendering. Now it is unbroken. Added helper functions
to get split information since it is a struct now.
[Sam Skillman <samskillman at gmail.com>] Clean up the old tools file, removing all the stuff that got moved to cython
and give it a PEP talk.
[Sam Skillman <samskillman at gmail.com>] Updating the tests, and now they pass! This does change the api for traversing
a tree, but that's not in the API, so I think this is ok. No one should be
directly accessing that.
[Sam Skillman <samskillman at gmail.com>] Adding back in single grid adds through a add_pygrid wrapper.
[Sam Skillman <samskillman at gmail.com>] Move from ndarray to np.float64_t pointers. Now up to 10x over original.
[Sam Skillman <samskillman at gmail.com>] Okay, traversal and rendering now works. 2x speedup for now. Need to move everything
away from ndarrays next.
[Sam Skillman <samskillman at gmail.com>] Initial go at cython amrkdtree. Works, but doesn't show a huge improvement.
Needs cleaning.
[Matthew Turk <matthewturk at gmail.com>] Merged in xarthisius/yt (pull request #535)
Fix 2D data handling for PIERNIK
[Kacper Kowalik <xarthisius.kk at gmail.com>] [gdf] provide sane default for 'data_software' since it is an optional attribute. Thanks Matt!
[Kacper Kowalik <xarthisius.kk at gmail.com>] [gdf] don't reduce dds to 1 for nonexisting dimensions for Piernik, as it breaks 2D data handling
[Kacper Kowalik <xarthisius.kk at gmail.com>] [gdf] read data_software string from gdf files
[Andrew Myers <atmyers2 at gmail.com>] Shouldn't this be Radial instead of Poloidal?
[Nathan Goldbaum <goldbaum at ucolick.org>] Subclassing argparse.ArgumentParser to get a better error message. Closes #596.
See http://stackoverflow.com/questions/4561580/how-to-let-the-parser-print-help-message-rather-than-error-and-exit
[Matthew Turk <matthewturk at gmail.com>] Merged in chummels/yt (pull request #532)
A few small things: tracer particle field, annotate_velocity, and annotate_contour updates
[Cameron Hummels <chummels at astro.columbia.edu>] Making sure I use yt's defined physical_constants
[Cameron Hummels <chummels at astro.columbia.edu>] Modifying annotate_contours to not default to false.
[Cameron Hummels <chummels at astro.columbia.edu>] Making modifications as suggested by mjturk and ngoldbaum to tracer particle field.
[Cameron Hummels <chummels at astro.columbia.edu>] Adding the ability to specify a bulk velocity to the annotate_velocity callback.
[Cameron Hummels <chummels at astro.columbia.edu>] Fixing a bug with annotate_contour, wherein it didn't recognize one of the designated keywords: take_log.
[Cameron Hummels <chummels at astro.columbia.edu>] Adding tracer particle field to enzo frontend. One can access it with "tracer_density".
[David Collins <dcollins at physics.ucsd.edu>] adding _type_name and _con_args to InLineExtractedRegionBase
[Matthew Turk <matthewturk at gmail.com>] Merged in atmyers/yt-clean (pull request #529)
Patching the RadMC3D export code
[Andrew Myers <atmyers2 at gmail.com>] Merged yt_analysis/yt into yt
[Andrew Myers <atmyers at berkeley.edu>] patching the RadMC3D exporter to work even if pf.h.grids are not already in order by level
[Nathan Goldbaum <goldbaum at ucolick.org>] Merged in samskillman/yt (pull request #530)
Draw coordinate vectors on renders
[Sam Skillman <samskillman at gmail.com>] Removing errant print.
[Sam Skillman <samskillman at gmail.com>] Adding docstrings to coordinate vector drawing.
[Sam Skillman <samskillman at gmail.com>] Adding ability to draw thick lines.
[Sam Skillman <samskillman at gmail.com>] Adding initial support for drawing r,g,b vectors on the image denoting the x,y,z
data coordinate vectors.
[Nathan Goldbaum <goldbaum at ucolick.org>] Correcting a typo in the dynamic scheduler.
[Nathan Goldbaum <goldbaum at ucolick.org>] Fixing the callback docstrings.
[Nathan Goldbaum <goldbaum at ucolick.org>] Adding run_nose convenience function.
This makes it possible to run nosetests from inside a running python instance:
>>> import yt
>>> yt.run_nose()
................ ... followed by 2000 more periods.
[Nathan Goldbaum <goldbaum at ucolick.org>] Making the test directories subpackages.
------------------------------------------
[...truncated 1175 lines...]
from build/src.linux-x86_64-2.7/yt/utilities/lib/alt_ray_tracers.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/alt_ray_tracers.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/alt_ray_tracers.so
building 'yt.utilities.lib.marching_cubes' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-Iyt/utilities/lib/ -I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/FixedInterpolator.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from yt/utilities/lib/FixedInterpolator.h:34,
from yt/utilities/lib/FixedInterpolator.c:27:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/marching_cubes.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/marching_cubes.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/marching_cubes.o build/temp.linux-x86_64-2.7/yt/utilities/lib/FixedInterpolator.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/marching_cubes.so
building 'yt.utilities.lib.misc_utilities' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/misc_utilities.so
building 'yt.utilities.lib.Octree' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/Octree.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/Octree.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/Octree.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/Octree.so
building 'yt.utilities.lib.png_writer' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-DPNG_SETJMP_NOT_SUPPORTED=True -I/usr/include -I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/png_writer.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/png_writer.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/png_writer.o -L/usr/lib -L/usr/lib64 -lm -lpng -lpython2.7 -o yt/utilities/lib/png_writer.so
building 'yt.utilities.lib.PointsInVolume' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/PointsInVolume.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/PointsInVolume.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/PointsInVolume.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/PointsInVolume.so
building 'yt.utilities.lib.QuadTree' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/QuadTree.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/QuadTree.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/QuadTree.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/QuadTree.so
building 'yt.utilities.lib.RayIntegrators' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/RayIntegrators.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/RayIntegrators.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/RayIntegrators.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/RayIntegrators.so
building 'yt.utilities.lib.VolumeIntegrator' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-Iyt/utilities/lib/ -I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/kdtree.c
In file included from /usr/include/python2.7/Python.h:8:0,
from yt/utilities/lib/kdtree.h:29,
from yt/utilities/lib/kdtree.c:32:
/usr/include/python2.7/pyconfig.h:1161:0: warning: "_POSIX_C_SOURCE" redefined [enabled by default]
In file included from /usr/include/stdio.h:28:0,
from yt/utilities/lib/kdtree.c:28:
/usr/include/features.h:215:0: note: this is the location of the previous definition
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from yt/utilities/lib/kdtree.h:30,
from yt/utilities/lib/kdtree.c:32:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/VolumeIntegrator.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/VolumeIntegrator.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_mk_pix2xy.c
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_pix2ang_nest.c
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/FixedInterpolator.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from yt/utilities/lib/FixedInterpolator.h:34,
from yt/utilities/lib/FixedInterpolator.c:27:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_pix2vec_nest.c
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_mk_xy2pix.c
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_vec2pix_nest.c
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_ang2pix_nest.c
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/VolumeIntegrator.o build/temp.linux-x86_64-2.7/yt/utilities/lib/FixedInterpolator.o build/temp.linux-x86_64-2.7/yt/utilities/lib/kdtree.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_vec2pix_nest.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_pix2vec_nest.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_pix2ang_nest.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_mk_xy2pix.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_mk_pix2xy.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_ang2pix_nest.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/VolumeIntegrator.so
building 'yt.utilities.lib.grid_traversal' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-Iyt/utilities/lib/ -I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
extra options: '-fopenmp'
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/kdtree.c
In file included from /usr/include/python2.7/Python.h:8:0,
from yt/utilities/lib/kdtree.h:29,
from yt/utilities/lib/kdtree.c:32:
/usr/include/python2.7/pyconfig.h:1161:0: warning: "_POSIX_C_SOURCE" redefined [enabled by default]
In file included from /usr/include/stdio.h:28:0,
from yt/utilities/lib/kdtree.c:28:
/usr/include/features.h:215:0: note: this is the location of the previous definition
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from yt/utilities/lib/kdtree.h:30,
from yt/utilities/lib/kdtree.c:32:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_mk_pix2xy.c
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/grid_traversal.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/grid_traversal.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/FixedInterpolator.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from yt/utilities/lib/FixedInterpolator.h:34,
from yt/utilities/lib/FixedInterpolator.c:27:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_pix2vec_nest.c
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_mk_xy2pix.c
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_vec2pix_nest.c
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_ang2pix_nest.c
x86_64-pc-linux-gnu-gcc: yt/utilities/lib/healpix_pix2ang_nest.c
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/grid_traversal.o build/temp.linux-x86_64-2.7/yt/utilities/lib/FixedInterpolator.o build/temp.linux-x86_64-2.7/yt/utilities/lib/kdtree.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_vec2pix_nest.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_pix2vec_nest.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_pix2ang_nest.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_mk_xy2pix.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_mk_pix2xy.o build/temp.linux-x86_64-2.7/yt/utilities/lib/healpix_ang2pix_nest.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/grid_traversal.so -fopenmp
building 'yt.utilities.lib.write_array' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/write_array.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/write_array.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/write_array.o -L/usr/lib64 -lpython2.7 -o yt/utilities/lib/write_array.so
building 'yt.utilities.lib.GridTree' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/GridTree.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/GridTree.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/GridTree.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/GridTree.so
building 'yt.utilities.lib.amr_kdtools' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/amr_kdtools.c
In file included from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1728:0,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
from /usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:15,
from build/src.linux-x86_64-2.7/yt/utilities/lib/amr_kdtools.c:314:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_deprecated_api.h:11:2: warning: #warning "Using deprecated NumPy API, disable it by #defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/amr_kdtools.o -L/usr/lib64 -lm -lpython2.7 -o yt/utilities/lib/amr_kdtools.so
building 'yt.utilities.libconfig_wrapper' extension
compiling C sources
C compiler: x86_64-pc-linux-gnu-gcc -pthread -fPIC
compile options: '-DHAVE_XLOCALE_H=True -Iyt/utilities/_libconfig/ -I/usr/lib64/python2.7/site-packages/numpy/core/include -I/usr/include/python2.7 -c'
x86_64-pc-linux-gnu-gcc: yt/utilities/_libconfig/grammar.c
x86_64-pc-linux-gnu-gcc: yt/utilities/_libconfig/libconfig.c
yt/utilities/_libconfig/libconfig.c: In function '__config_locale_override':
yt/utilities/_libconfig/libconfig.c:100:2: warning: #warning "No way to modify calling thread's locale!" [-Wcpp]
yt/utilities/_libconfig/libconfig.c: In function '__config_locale_restore':
yt/utilities/_libconfig/libconfig.c:121:2: warning: #warning "No way to modify calling thread's locale!" [-Wcpp]
x86_64-pc-linux-gnu-gcc: yt/utilities/_libconfig/strbuf.c
x86_64-pc-linux-gnu-gcc: yt/utilities/_libconfig/scanner.c
x86_64-pc-linux-gnu-gcc: build/src.linux-x86_64-2.7/yt/utilities/libconfig_wrapper.c
build/src.linux-x86_64-2.7/yt/utilities/libconfig_wrapper.c: In function '__pyx_pf_2yt_9utilities_17libconfig_wrapper_22libconfigConfiguration_4read_file':
build/src.linux-x86_64-2.7/yt/utilities/libconfig_wrapper.c:1026:24: warning: assignment discards 'const' qualifier from pointer target type [enabled by default]
build/src.linux-x86_64-2.7/yt/utilities/libconfig_wrapper.c:1035:24: warning: assignment discards 'const' qualifier from pointer target type [enabled by default]
build/src.linux-x86_64-2.7/yt/utilities/libconfig_wrapper.c: In function '__pyx_pf_2yt_9utilities_17libconfig_wrapper_22libconfigConfiguration_10get_setting':
build/src.linux-x86_64-2.7/yt/utilities/libconfig_wrapper.c:1563:23: warning: assignment discards 'const' qualifier from pointer target type [enabled by default]
x86_64-pc-linux-gnu-gcc: yt/utilities/_libconfig/scanctx.c
x86_64-pc-linux-gnu-gcc -pthread -shared build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/libconfig_wrapper.o build/temp.linux-x86_64-2.7/yt/utilities/_libconfig/strbuf.o build/temp.linux-x86_64-2.7/yt/utilities/_libconfig/scanner.o build/temp.linux-x86_64-2.7/yt/utilities/_libconfig/scanctx.o build/temp.linux-x86_64-2.7/yt/utilities/_libconfig/libconfig.o build/temp.linux-x86_64-2.7/yt/utilities/_libconfig/grammar.o -L/usr/lib64 -lpython2.7 -o yt/utilities/libconfig_wrapper.so
running scons
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................E/usr/lib64/python2.7/site-packages/matplotlib/tight_layout.py:225: UserWarning: tight_layout : falling back to Agg renderer
warnings.warn("tight_layout : falling back to Agg renderer")
...................................................
======================================================================
ERROR: test suite for <module 'yt.utilities' from '<http://ladon:8080/job/py2.7-yt-3.0/ws/yt/utilities/__init__.pyc'>>
----------------------------------------------------------------------
Traceback (most recent call last):
File "/usr/lib64/python2.7/site-packages/nose/suite.py", line 208, in run
self.setUp()
File "/usr/lib64/python2.7/site-packages/nose/suite.py", line 291, in setUp
self.setupContext(ancestor)
File "/usr/lib64/python2.7/site-packages/nose/suite.py", line 314, in setupContext
try_run(context, names)
File "/usr/lib64/python2.7/site-packages/nose/util.py", line 464, in try_run
(name, obj))
TypeError: Attribute setup of <module 'yt.utilities' from '<http://ladon:8080/job/py2.7-yt-3.0/ws/yt/utilities/__init__.pyc'>> is not a python function. Only functions or callables may be used as fixtures.
----------------------------------------------------------------------
Ran 2355 tests in 322.415s
FAILED (errors=1)
Build step 'Custom Python Builder' marked build as failure
Recording test results
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