[yt-svn] Build failed in Jenkins: py2.7-yt_analysis-dev #58
admin at shiningpanda.com
admin at shiningpanda.com
Thu Nov 8 11:45:43 PST 2012
See <https://jenkins.shiningpanda-ci.com/yt-project/job/py2.7-yt_analysis-dev/58/changes>
Changes:
[Britton Smith <brittonsmith at gmail.com>] Merged in MatthewTurk/yt (pull request #324)
[Matthew Turk <matthewturk at gmail.com>] Adding refine_amr routine to Stream frontend, for taking a parameter file and
recursively applying refinement criteria and fluid operations
[Matthew Turk <matthewturk at gmail.com>] Preliminary support for refining grids.
* Updated hierarchy print_stats to print cells^3
* Added grow_flagging_field Cython function
* Added FlaggingGrid, which is a wrapper for finding the flagging field of a
grid
* Added ProtoSubgrid, which can identify splits, shrink itself, etc
* Added CoredSphere FluidOperator
[Matthew Turk <matthewturk at gmail.com>] Minor fix to the base class of RandomFluctuation
[Matthew Turk <matthewturk at gmail.com>] Merging some stray changes to the fluid operators
[Matthew Turk <matthewturk at gmail.com>] Merging from tip
[Matthew Turk <matthewturk at gmail.com>] A few more changes to the FluidOperator stuff for initial conditions
[Matthew Turk <matthewturk at gmail.com>] Sketching out a bit more of the data modifiers, and adding a random fluctuation
[Matthew Turk <matthewturk at gmail.com>] Adding some routines for refinement, including identifying subgrids.
[Matthew Turk <matthewturk at gmail.com>] Merged in ngoldbaum/yt (pull request #326)
[Nathan Goldbaum <goldbaum at ucolick.org>] The font size for the axis, colorbar, and tick labels is now controllable via a fontsize keyword argument.
Choosing a default that's somewhat bigger than the matplotlib defaults.
------------------------------------------
Started by remote host 188.121.252.11 with note: Triggered by push of revision b9d9aca343f5: "Merged in ngoldbaum/yt (pull request #326)" to https://bitbucket.org/yt_analysis/yt/ by MatthewTurk
Started by remote host 188.121.252.11 with note: Triggered by push of revision bc33e01c0c6e: "Merged in MatthewTurk/yt (pull request #324)" to https://bitbucket.org/yt_analysis/yt/ by brittonsmith
[EnvInject] - Loading node environment variables.
Building remotely on Default Debian 6 - Squeeze .1 in workspace <https://jenkins.shiningpanda-ci.com/yt-project/job/py2.7-yt_analysis-dev/ws/>
[py2.7-yt_analysis-dev] $ hg showconfig paths.default
[FD025937AF140079D15BA91CC000F73D482141BF-yt] $ hg pull
real URL is https://bitbucket.org/yt_analysis/yt/
pulling from http://bitbucket.org/yt_analysis/yt/
searching for changes
adding changesets
adding manifests
adding file changes
added 11 changesets with 15 changes to 7 files
(run 'hg update' to get a working copy)
[FD025937AF140079D15BA91CC000F73D482141BF-yt] $ hg heads --template {node}\n --topo --closed
[FD025937AF140079D15BA91CC000F73D482141BF-yt] $ hg heads --template {node}\n --topo --closed
[FD025937AF140079D15BA91CC000F73D482141BF-yt] $ hg bundle --base 1cad28f3bb6015827e9a2b3835ec4cd847b3efe2 --base fd840d83bd32fe1a23910a6184fa7e0bf2e531db --base 59c255148963fdc90204b58f6b613d2012da1357 --base eaeb1423501cd6e7fd15c9a5ddce333ea922a1e3 --base 6fff305ffb8bb9f3c99e854dde60970ffe5f25d4 --base d46d8b73fe698fb1f104c24f90e8a20ce586efbe --base 1af63373e4796615f4093663b81bcc5230347255 --base 86a0d403294fab7a704dbab5f1cae134f22a87f5 --base 94ef428d12913f1f036ffba868a75aa88721af07 --base 041f1470ecf2d5abe59f5717ccb755ad874fc7fb --base 1bec29f8a2a67db1ab7958feb9df9169c46ddbc3 --base d560bb02d2af0072c4da55bbbdc11f8e7d30383f --base f76d9b8342f9c15f3a821b17e7cc821c6d01e046 --base 3fb47750b63d3999ebedbe727eab5513aecd6254 --base f4612e6b3c1e41b94ee712f036219473afc7189e --base b0ef9357ecfca390521c5a678ad7f0fcaf9c3cae --base c6370f52167275b7afb941744eab4c5b1cde72d3 --base a57a3ec829a9204f23e3969ed9c8e18cee2dfc46 --base f0fd92687c31a679b85d4c10dd8900be90c2f258 --base 33dd0836da9e33a110e68245d96f59a0e1db2ca2 --base 644d81878a96fc2d6d58159e1e8cdef0547d3881 --base e3c55655e3bf2f4339b3f14d0492841e66cf9daa --base ba573a42c69cdd23cb3bc4b4f888a3a4182bf18a --base d7d6a4bc66481c94379275a38f43d207217f7c79 --base 0ae23df4c75ec7d398834b1b63cebc138acbaef7 --base 8a462ff16f90501436a95316cddd59543a4834dd --base c1f4c2652dfad71bef54ded1d19c34af2d95a13e --base 872b737e000d886fafc2d4c2cf6fdc476aaf729d --base deb1219e78e82825032eef4430a3a42d7935b8e0 --base 8631b8c53cbdeb2d2e35f67624e2426f6cfeadb5 xfer.hg
11 changesets found
[FD025937AF140079D15BA91CC000F73D482141BF-yt] $ hg unbundle xfer.hg
adding changesets
adding manifests
adding file changes
added 11 changesets with 15 changes to 8 files
(run 'hg update' to get a working copy)
[py2.7-yt_analysis-dev] $ hg pull --rev yt /home/slave/jenkins/hgcache/FD025937AF140079D15BA91CC000F73D482141BF-yt
[py2.7-yt_analysis-dev] $ hg update --clean --rev yt
7 files updated, 0 files merged, 0 files removed, 0 files unresolved
[py2.7-yt_analysis-dev] $ hg log --rev . --template {node}
[py2.7-yt_analysis-dev] $ hg log --rev . --template {rev}
[py2.7-yt_analysis-dev] $ hg log --rev 1cad28f3bb6015827e9a2b3835ec4cd847b3efe2
[py2.7-yt_analysis-dev] $ hg log --template "<changeset node='{node}' author='{author|xmlescape}' rev='{rev}' date='{date}'><msg>{desc|xmlescape}</msg><added>{file_adds|stringify|xmlescape}</added><deleted>{file_dels|stringify|xmlescape}</deleted><files>{files|stringify|xmlescape}</files><parents>{parents}</parents></changeset>\n" --rev yt:0 --follow --prune 1cad28f3bb6015827e9a2b3835ec4cd847b3efe2
[py2.7-yt_analysis-dev] $ /bin/sh -xe /tmp/shiningpanda7040638624470359797.sh
+ export HDF5_DIR=/home/slave/yt-x86_64/
+ pip install nose coverage pylint
Requirement already satisfied (use --upgrade to upgrade): nose in /home/slave/yt-x86_64/lib/python2.7/site-packages
Requirement already satisfied (use --upgrade to upgrade): coverage in /home/slave/yt-x86_64/lib/python2.7/site-packages
Requirement already satisfied (use --upgrade to upgrade): pylint in /home/slave/yt-x86_64/lib/python2.7/site-packages
Requirement already satisfied (use --upgrade to upgrade): logilab-common>=0.53.0 in /home/slave/yt-x86_64/lib/python2.7/site-packages (from pylint)
Requirement already satisfied (use --upgrade to upgrade): logilab-astng>=0.21.1 in /home/slave/yt-x86_64/lib/python2.7/site-packages (from pylint)
Cleaning up...
+ cd yt/utilities/kdtree
+ make
Using Forthon ()
Forthon -F gfortran --compile_first fKD_source --no2underscores --fopt "-O3" fKD fKD_source.f90
make[1]: Nothing to be done for `dynamic'.
In file included from build/temp.linux-x86_64-2.7/fKDpymodule.c:1:
build/temp.linux-x86_64-2.7/Forthon.h:112: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:113: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:114: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:115: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:125: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:126: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:127: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:128: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:147: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:148: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:153: warning: function declaration isn’t a prototype
build/temp.linux-x86_64-2.7/Forthon.h:154: warning: function declaration isn’t a prototype
Building package fKD
Setup fKD
mv build/lib*/fKDpy.so .
+ cd ../../..
+ export PYTHONPATH=<https://jenkins.shiningpanda-ci.com/yt-project/job/py2.7-yt_analysis-dev/ws/>
+ /home/slave/yt-x86_64/bin/python setup.py egg_info build_ext -i
PNG_LOCATION: png found in: /usr/include, /usr/lib
FTYPE_LOCATION: freetype found in: /usr/include, /usr/lib
HDF5_LOCATION: HDF5_DIR: /home/slave/yt-x86_64/include, /home/slave/yt-x86_64/lib
running egg_info
running build_src
build_src
building py_modules sources
building extension "yt.analysis_modules.halo_finding.fof.EnzoFOF" sources
building extension "yt.analysis_modules.halo_finding.hop.EnzoHop" sources
building extension "yt.frontends.ramses._ramses_reader" sources
building extension "yt.utilities.delaunay._delaunay" sources
building extension "yt.utilities.spatial.ckdtree" sources
building extension "yt.utilities.spatial._distance_wrap" sources
building extension "yt.utilities.lib.CICDeposit" sources
building extension "yt.utilities.lib.ContourFinding" sources
building extension "yt.utilities.lib.DepthFirstOctree" sources
building extension "yt.utilities.lib.fortran_reader" sources
building extension "yt.utilities.lib.freetype_writer" sources
building extension "yt.utilities.lib.geometry_utils" sources
building extension "yt.utilities.lib.Interpolators" sources
building extension "yt.utilities.lib.marching_cubes" sources
building extension "yt.utilities.lib.misc_utilities" sources
cythonc:> yt/utilities/lib/misc_utilities.c
building extension "yt.utilities.lib.Octree" sources
building extension "yt.utilities.lib.png_writer" sources
building extension "yt.utilities.lib.PointsInVolume" sources
building extension "yt.utilities.lib.QuadTree" sources
building extension "yt.utilities.lib.RayIntegrators" sources
building extension "yt.utilities.lib.VolumeIntegrator" sources
building extension "yt.utilities.lib.grid_traversal" sources
building extension "yt.utilities.data_point_utilities" sources
building extension "yt.utilities.hdf5_light_reader" sources
building extension "yt.utilities.libconfig_wrapper" sources
building extension "yt.visualization._MPL" sources
building data_files sources
build_src: building npy-pkg config files
writing yt.egg-info/PKG-INFO
writing top-level names to yt.egg-info/top_level.txt
writing dependency_links to yt.egg-info/dependency_links.txt
writing entry points to yt.egg-info/entry_points.txt
reading manifest file 'yt.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
writing manifest file 'yt.egg-info/SOURCES.txt'
running build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
building 'yt.utilities.lib.misc_utilities' extension
compiling C sources
C compiler: gcc -pthread -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC
compile options: '-I/home/slave/yt-x86_64/lib/python2.7/site-packages/numpy/core/include -I/home/slave/yt-x86_64/include/python2.7 -c'
gcc: yt/utilities/lib/misc_utilities.c
yt/utilities/lib/misc_utilities.c: In function ‘__Pyx_GetBuffer’:
yt/utilities/lib/misc_utilities.c:9831: warning: unused variable ‘getbuffer_cobj’
yt/utilities/lib/misc_utilities.c: In function ‘__Pyx_ReleaseBuffer’:
yt/utilities/lib/misc_utilities.c:9871: warning: unused variable ‘releasebuffer_cobj’
yt/utilities/lib/misc_utilities.c: At top level:
/home/slave/yt-x86_64/lib/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1532: warning: ‘_import_array’ defined but not used
/home/slave/yt-x86_64/lib/python2.7/site-packages/numpy/core/include/numpy/__ufunc_api.h:226: warning: ‘_import_umath’ defined but not used
yt/utilities/lib/misc_utilities.c: In function ‘__pyx_pf_2yt_9utilities_3lib_14misc_utilities_14kdtree_get_choices’:
yt/utilities/lib/misc_utilities.c:4809: warning: ‘__pyx_v_my_split’ may be used uninitialized in this function
gcc -pthread -shared -L/home/slave/yt-x86_64/lib/ -L/home/slave/yt-x86_64/lib64/ -L/home/slave/yt-x86_64/lib/ -L/home/slave/yt-x86_64/lib64/ -L/home/slave/yt-x86_64/lib/ -L/home/slave/yt-x86_64/lib64/ -L/home/slave/yt-x86_64/lib/ -L/home/slave/yt-x86_64/lib64/ build/temp.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.o -lm -o yt/utilities/lib/misc_utilities.so
running scons
+ /home/slave/yt-x86_64/bin/python setup.py nosetests --with-answer-testing
PNG_LOCATION: png found in: /usr/include, /usr/lib
FTYPE_LOCATION: freetype found in: /usr/include, /usr/lib
HDF5_LOCATION: HDF5_DIR: /home/slave/yt-x86_64/include, /home/slave/yt-x86_64/lib
running nosetests
running egg_info
running build_src
build_src
building py_modules sources
building extension "yt.analysis_modules.halo_finding.fof.EnzoFOF" sources
building extension "yt.analysis_modules.halo_finding.hop.EnzoHop" sources
building extension "yt.frontends.ramses._ramses_reader" sources
building extension "yt.utilities.delaunay._delaunay" sources
building extension "yt.utilities.spatial.ckdtree" sources
building extension "yt.utilities.spatial._distance_wrap" sources
building extension "yt.utilities.lib.CICDeposit" sources
building extension "yt.utilities.lib.ContourFinding" sources
building extension "yt.utilities.lib.DepthFirstOctree" sources
building extension "yt.utilities.lib.fortran_reader" sources
building extension "yt.utilities.lib.freetype_writer" sources
building extension "yt.utilities.lib.geometry_utils" sources
building extension "yt.utilities.lib.Interpolators" sources
building extension "yt.utilities.lib.marching_cubes" sources
building extension "yt.utilities.lib.misc_utilities" sources
cythonc:> build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c
building extension "yt.utilities.lib.Octree" sources
building extension "yt.utilities.lib.png_writer" sources
building extension "yt.utilities.lib.PointsInVolume" sources
building extension "yt.utilities.lib.QuadTree" sources
building extension "yt.utilities.lib.RayIntegrators" sources
building extension "yt.utilities.lib.VolumeIntegrator" sources
building extension "yt.utilities.lib.grid_traversal" sources
building extension "yt.utilities.data_point_utilities" sources
building extension "yt.utilities.hdf5_light_reader" sources
building extension "yt.utilities.libconfig_wrapper" sources
building extension "yt.visualization._MPL" sources
building data_files sources
build_src: building npy-pkg config files
writing yt.egg-info/PKG-INFO
writing top-level names to yt.egg-info/top_level.txt
writing dependency_links to yt.egg-info/dependency_links.txt
writing entry points to yt.egg-info/entry_points.txt
reading manifest file 'yt.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
writing manifest file 'yt.egg-info/SOURCES.txt'
running build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
building 'yt.utilities.lib.misc_utilities' extension
compiling C sources
C compiler: gcc -pthread -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC
compile options: '-I/home/slave/yt-x86_64/lib/python2.7/site-packages/numpy/core/include -I/home/slave/yt-x86_64/include/python2.7 -c'
gcc: build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c
build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c: In function ‘__Pyx_GetBuffer’:
build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c:9831: warning: unused variable ‘getbuffer_cobj’
build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c: In function ‘__Pyx_ReleaseBuffer’:
build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c:9871: warning: unused variable ‘releasebuffer_cobj’
build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c: At top level:
/home/slave/yt-x86_64/lib/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1532: warning: ‘_import_array’ defined but not used
/home/slave/yt-x86_64/lib/python2.7/site-packages/numpy/core/include/numpy/__ufunc_api.h:226: warning: ‘_import_umath’ defined but not used
build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c: In function ‘__pyx_pf_2yt_9utilities_3lib_14misc_utilities_14kdtree_get_choices’:
build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.c:4809: warning: ‘__pyx_v_my_split’ may be used uninitialized in this function
gcc -pthread -shared -L/home/slave/yt-x86_64/lib/ -L/home/slave/yt-x86_64/lib64/ -L/home/slave/yt-x86_64/lib/ -L/home/slave/yt-x86_64/lib64/ -L/home/slave/yt-x86_64/lib/ -L/home/slave/yt-x86_64/lib64/ -L/home/slave/yt-x86_64/lib/ -L/home/slave/yt-x86_64/lib64/ build/temp.linux-x86_64-2.7/build/src.linux-x86_64-2.7/yt/utilities/lib/misc_utilities.o -lm -o yt/utilities/lib/misc_utilities.so
running scons
....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................E.....
======================================================================
ERROR: test_flagging_methods.test_over_density
----------------------------------------------------------------------
Traceback (most recent call last):
File "/home/slave/yt-x86_64/lib/python2.7/site-packages/nose/case.py", line 197, in runTest
self.test(*self.arg)
File "<https://jenkins.shiningpanda-ci.com/yt-project/job/py2.7-yt_analysis-dev/ws/yt/utilities/tests/test_flagging_methods.py",> line 12, in test_over_density
assert( np.all( od_flag(pf, pf.h.grids[0]) == criterion) )
TypeError: __call__() takes exactly 2 arguments (3 given)
-------------------- >> begin captured logging << --------------------
yt: INFO: Parameters: current_time = 0.0
yt: INFO: Parameters: domain_dimensions = [64 64 64]
yt: INFO: Parameters: domain_left_edge = [ 0. 0. 0.]
yt: INFO: Parameters: domain_right_edge = [ 1. 1. 1.]
yt: INFO: Parameters: cosmological_simulation = 0.0
yt: INFO: Parameters: current_time = 0.0
yt: INFO: Parameters: domain_dimensions = [64 64 64]
yt: INFO: Parameters: domain_left_edge = [ 0. 0. 0.]
yt: INFO: Parameters: domain_right_edge = [ 1. 1. 1.]
yt: INFO: Parameters: cosmological_simulation = 0.0
yt: DEBUG: Initializing data storage.
yt: DEBUG: Counting grids.
yt: DEBUG: Setting up classes.
yt: DEBUG: Counting grids.
yt: DEBUG: Allocating arrays for 1 grids
yt: DEBUG: Parsing hierarchy.
yt: DEBUG: Copying reverse tree
yt: DEBUG: Preparing grids
yt: DEBUG: Prepared 0 / 1 grids
yt: DEBUG: Prepared
yt: DEBUG: Constructing grid objects.
yt: DEBUG: Initializing data grid data IO
yt: DEBUG: Detecting fields.
yt: DEBUG: Adding unknown detected fields
yt: INFO: Adding Density to list of fields
yt: DEBUG: Setting up derived fields
yt: DEBUG: Re-examining hierarchy
--------------------- >> end captured logging << ---------------------
----------------------------------------------------------------------
Ran 2090 tests in 395.221s
FAILED (errors=1)
Build step 'Custom Python Builder' marked build as failure
Recording test results
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