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Created December 16, 2014 19:23
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goldbaum at ubuntu-humperdinck in ~/Documents/test
○ mpirun -n 2 python test.py --parallel
yt : [DEBUG ] 2014-12-16 11:22:27,037 Set log level to 1
yt : [DEBUG ] 2014-12-16 11:22:27,038 Set log level to 1
yt : [DEBUG ] 2014-12-16 11:22:27,049 SIGUSR1 registered for traceback printing
yt : [DEBUG ] 2014-12-16 11:22:27,049 SIGUSR2 registered for IPython Insertion
yt : [DEBUG ] 2014-12-16 11:22:27,049 SIGUSR1 registered for traceback printing
yt : [DEBUG ] 2014-12-16 11:22:27,050 SIGUSR2 registered for IPython Insertion
yt : [INFO ] 2014-12-16 11:22:28,067 Global parallel computation enabled: 1 / 2
yt : [INFO ] 2014-12-16 11:22:28,067 Global parallel computation enabled: 0 / 2
P000 yt : [WARNING ] 2014-12-16 11:22:28,088 Log Level is set low -- this could affect parallel performance!
P001 yt : [WARNING ] 2014-12-16 11:22:28,089 Log Level is set low -- this could affect parallel performance!
P000 yt : [DEBUG ] 2014-12-16 11:22:28,128 Registering: StaticOutput as <class 'yt.data_objects.static_output.StaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,129 Registering: StaticOutput as <class 'yt.data_objects.static_output.StaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,141 Registering: EnzoStaticOutput as <class 'yt.frontends.enzo.data_structures.EnzoStaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,141 Registering: EnzoStaticOutputInMemory as <class 'yt.frontends.enzo.data_structures.EnzoStaticOutputInMemory'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,141 Registering: EnzoStaticOutput as <class 'yt.frontends.enzo.data_structures.EnzoStaticOutput'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,142 Registering: EnzoStaticOutputInMemory as <class 'yt.frontends.enzo.data_structures.EnzoStaticOutputInMemory'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,142 Registering simulation: Enzo as <class 'yt.frontends.enzo.simulation_handling.EnzoSimulation'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,142 Registering simulation: Enzo as <class 'yt.frontends.enzo.simulation_handling.EnzoSimulation'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,143 Registering: NyxStaticOutput as <class 'yt.frontends.nyx.data_structures.NyxStaticOutput'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,144 Registering: NyxStaticOutput as <class 'yt.frontends.nyx.data_structures.NyxStaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,145 Registering: OrionStaticOutput as <class 'yt.frontends.orion.data_structures.OrionStaticOutput'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,145 Registering: OrionStaticOutput as <class 'yt.frontends.orion.data_structures.OrionStaticOutput'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,156 Registering: FLASHStaticOutput as <class 'yt.frontends.flash.data_structures.FLASHStaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,156 Registering: FLASHStaticOutput as <class 'yt.frontends.flash.data_structures.FLASHStaticOutput'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,157 Registering: ChomboStaticOutput as <class 'yt.frontends.chombo.data_structures.ChomboStaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,157 Registering: ChomboStaticOutput as <class 'yt.frontends.chombo.data_structures.ChomboStaticOutput'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,158 Registering: GDFStaticOutput as <class 'yt.frontends.gdf.data_structures.GDFStaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,158 Registering: GDFStaticOutput as <class 'yt.frontends.gdf.data_structures.GDFStaticOutput'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,159 Registering: AthenaStaticOutput as <class 'yt.frontends.athena.data_structures.AthenaStaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,159 Registering: AthenaStaticOutput as <class 'yt.frontends.athena.data_structures.AthenaStaticOutput'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,160 Registering: PlutoStaticOutput as <class 'yt.frontends.pluto.data_structures.PlutoStaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,160 Registering: PlutoStaticOutput as <class 'yt.frontends.pluto.data_structures.PlutoStaticOutput'>
P000 yt : [DEBUG ] 2014-12-16 11:22:28,161 Registering: StreamStaticOutput as <class 'yt.frontends.stream.data_structures.StreamStaticOutput'>
P001 yt : [DEBUG ] 2014-12-16 11:22:28,161 Registering: StreamStaticOutput as <class 'yt.frontends.stream.data_structures.StreamStaticOutput'>
/home/goldbaum/anaconda/lib/python2.7/site-packages/matplotlib/cbook.py:137: MatplotlibDeprecationWarning: The matplotlib.delaunay module was deprecated in version 1.4. Use matplotlib.tri.Triangulation instead.
warnings.warn(message, mplDeprecation, stacklevel=1)
/home/goldbaum/anaconda/lib/python2.7/site-packages/matplotlib/cbook.py:137: MatplotlibDeprecationWarning: The matplotlib.delaunay module was deprecated in version 1.4. Use matplotlib.tri.Triangulation instead.
warnings.warn(message, mplDeprecation, stacklevel=1)
P000 yt : [INFO ] 2014-12-16 11:22:28,380 Parameters: current_time = 230.665274892
P000 yt : [INFO ] 2014-12-16 11:22:28,380 Parameters: domain_dimensions = [32 32 32]
P000 yt : [INFO ] 2014-12-16 11:22:28,381 Parameters: domain_left_edge = [ 0. 0. 0.]
P000 yt : [INFO ] 2014-12-16 11:22:28,381 Parameters: domain_right_edge = [ 1. 1. 1.]
P000 yt : [INFO ] 2014-12-16 11:22:28,382 Parameters: cosmological_simulation = 1
P000 yt : [INFO ] 2014-12-16 11:22:28,382 Parameters: current_redshift = -2.7810863612e-09
P000 yt : [INFO ] 2014-12-16 11:22:28,382 Parameters: omega_lambda = 0.727
P000 yt : [INFO ] 2014-12-16 11:22:28,382 Parameters: omega_matter = 0.273
P000 yt : [INFO ] 2014-12-16 11:22:28,382 Parameters: hubble_constant = 0.702
P000 yt : [DEBUG ] 2014-12-16 11:22:28,383 Initializing data storage.
P001 yt : [DEBUG ] 2014-12-16 11:22:28,383 Initializing data storage.
P000 yt : [DEBUG ] 2014-12-16 11:22:28,383 Opening MPI Barrier on 0
P001 yt : [DEBUG ] 2014-12-16 11:22:28,383 Opening MPI Barrier on 1
File "test.py", line 21, in <module>
do_parallel(pf)
File "test.py", line 15, in do_parallel
pf.h
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/static_output.py", line 195, in hierarchy
self, data_style=self.data_style)
File "/home/goldbaum/Documents/yt-hg/yt/frontends/enzo/data_structures.py", line 218, in __init__
AMRHierarchy.__init__(self, pf, data_style)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/hierarchy.py", line 49, in __init__
self._initialize_data_storage()
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/hierarchy.py", line 243, in _initialize_data_storage
self.comm.barrier()
File "test.py", line 21, in <module>
do_parallel(pf)
File "test.py", line 15, in do_parallel
pf.h
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/static_output.py", line 195, in hierarchy
self, data_style=self.data_style)
File "/home/goldbaum/Documents/yt-hg/yt/frontends/enzo/data_structures.py", line 218, in __init__
AMRHierarchy.__init__(self, pf, data_style)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/hierarchy.py", line 49, in __init__
self._initialize_data_storage()
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/hierarchy.py", line 243, in _initialize_data_storage
self.comm.barrier()
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 511, in barrier
traceback.print_stack()
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 511, in barrier
traceback.print_stack()
P000 yt : [DEBUG ] 2014-12-16 11:22:28,385 Counting grids.
P001 yt : [DEBUG ] 2014-12-16 11:22:28,385 Counting grids.
P000 yt : [DEBUG ] 2014-12-16 11:22:28,385 Your data uses the annoying hardcoded path.
P001 yt : [DEBUG ] 2014-12-16 11:22:28,385 Your data uses the annoying hardcoded path.
P000 yt : [DEBUG ] 2014-12-16 11:22:28,386 Detected packed HDF5
P001 yt : [DEBUG ] 2014-12-16 11:22:28,386 Detected packed HDF5
P000 yt : [DEBUG ] 2014-12-16 11:22:28,386 Setting up classes.
P001 yt : [DEBUG ] 2014-12-16 11:22:28,386 Setting up classes.
P001 yt : [DEBUG ] 2014-12-16 11:22:28,387 Counting grids.
P000 yt : [DEBUG ] 2014-12-16 11:22:28,387 Counting grids.
P000 yt : [DEBUG ] 2014-12-16 11:22:28,387 Allocating arrays for 211 grids
P001 yt : [DEBUG ] 2014-12-16 11:22:28,387 Allocating arrays for 211 grids
P000 yt : [DEBUG ] 2014-12-16 11:22:28,387 Parsing hierarchy.
P001 yt : [DEBUG ] 2014-12-16 11:22:28,387 Parsing hierarchy.
P000 yt : [INFO ] 2014-12-16 11:22:28,388 Getting the binary hierarchy
P001 yt : [INFO ] 2014-12-16 11:22:28,388 Getting the binary hierarchy
P000 yt : [INFO ] 2014-12-16 11:22:28,417 Finished with binary hierarchy reading
P001 yt : [INFO ] 2014-12-16 11:22:28,417 Finished with binary hierarchy reading
P001 yt : [DEBUG ] 2014-12-16 11:22:28,418 Constructing grid objects.
P000 yt : [DEBUG ] 2014-12-16 11:22:28,418 Constructing grid objects.
P001 yt : [DEBUG ] 2014-12-16 11:22:28,423 Initializing data grid data IO
P000 yt : [DEBUG ] 2014-12-16 11:22:28,423 Initializing data grid data IO
P001 yt : [DEBUG ] 2014-12-16 11:22:28,423 Detecting fields.
P000 yt : [DEBUG ] 2014-12-16 11:22:28,423 Detecting fields.
P001 yt : [DEBUG ] 2014-12-16 11:22:28,424 Opening MPI Barrier on 1
P000 yt : [DEBUG ] 2014-12-16 11:22:28,424 Opening MPI Barrier on 0
File "test.py", line 21, in <module>
do_parallel(pf)
File "test.py", line 15, in do_parallel
pf.h
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/static_output.py", line 195, in hierarchy
self, data_style=self.data_style)
File "/home/goldbaum/Documents/yt-hg/yt/frontends/enzo/data_structures.py", line 218, in __init__
AMRHierarchy.__init__(self, pf, data_style)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/hierarchy.py", line 71, in __init__
self._detect_fields()
File "/home/goldbaum/Documents/yt-hg/yt/frontends/enzo/data_structures.py", line 483, in _detect_fields
self.save_data(list(field_list),"/","DataFields",passthrough=True)
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 232, in in_order
comm.barrier()
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 511, in barrier
traceback.print_stack()
File "test.py", line 21, in <module>
do_parallel(pf)
File "test.py", line 15, in do_parallel
pf.h
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/static_output.py", line 195, in hierarchy
self, data_style=self.data_style)
File "/home/goldbaum/Documents/yt-hg/yt/frontends/enzo/data_structures.py", line 218, in __init__
AMRHierarchy.__init__(self, pf, data_style)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/hierarchy.py", line 71, in __init__
self._detect_fields()
File "/home/goldbaum/Documents/yt-hg/yt/frontends/enzo/data_structures.py", line 483, in _detect_fields
self.save_data(list(field_list),"/","DataFields",passthrough=True)
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 232, in in_order
comm.barrier()
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 511, in barrier
traceback.print_stack()
P000 yt : [DEBUG ] 2014-12-16 11:22:28,424 Detecting fields in backup file
P000 yt : [DEBUG ] 2014-12-16 11:22:28,424 Adding unknown detected fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,424 Adding known field particle_type to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Detecting fields in backup file
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field Temperature to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding unknown detected fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field Density to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field creation_time to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field particle_type to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field TotalEnergy to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field Dark_Matter_Density to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field Temperature to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field Metal_Density to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field Density to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field x-velocity to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field creation_time to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field dynamical_time to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field TotalEnergy to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field particle_index to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field Dark_Matter_Density to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field particle_mass to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field Metal_Density to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field x-velocity to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field z-velocity to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field dynamical_time to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,425 Adding known field metallicity_fraction to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_index to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_position_z to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_mass to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_position_x to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field z-velocity to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_position_y to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field metallicity_fraction to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field y-velocity to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_velocity_z to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_position_z to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_velocity_x to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_position_x to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_velocity_y to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_position_y to list of fields
P000 yt : [DEBUG ] 2014-12-16 11:22:28,426 Setting up derived fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field y-velocity to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_velocity_z to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_velocity_x to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Adding known field particle_velocity_y to list of fields
P001 yt : [DEBUG ] 2014-12-16 11:22:28,426 Setting up derived fields
/home/goldbaum/Documents/yt-hg/yt/frontends/enzo/fields.py:202: RuntimeWarning: divide by zero encountered in divide
fieldData += data["Density"] / mu
/home/goldbaum/Documents/yt-hg/yt/frontends/enzo/fields.py:202: RuntimeWarning: divide by zero encountered in divide
fieldData += data["Density"] / mu
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:892: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
velocities = obtain_rv_vec(data)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:892: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
velocities = obtain_rv_vec(data)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1583: RuntimeWarning: invalid value encountered in divide
domegax_dt = data["VorticityX"] / data["VorticityGrowthX"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1583: RuntimeWarning: invalid value encountered in divide
domegax_dt = data["VorticityX"] / data["VorticityGrowthX"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1584: RuntimeWarning: invalid value encountered in divide
domegay_dt = data["VorticityY"] / data["VorticityGrowthY"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1584: RuntimeWarning: invalid value encountered in divide
domegay_dt = data["VorticityY"] / data["VorticityGrowthY"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1585: RuntimeWarning: invalid value encountered in divide
domegaz_dt = data["VorticityZ"] / data["VorticityGrowthZ"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1585: RuntimeWarning: invalid value encountered in divide
domegaz_dt = data["VorticityZ"] / data["VorticityGrowthZ"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:193: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
velocities = obtain_rv_vec(data)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:193: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
velocities = obtain_rv_vec(data)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:647: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
return obtain_rv_vec(data)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:647: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
return obtain_rv_vec(data)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:353: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
velocities = obtain_rv_vec(data)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:353: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
velocities = obtain_rv_vec(data)
P000 yt : [DEBUG ] 2014-12-16 11:22:28,562 Generating vorticity on defaultdict(<function <lambda> at 0x7f5a24c91140>, {'dz': array([ 1.]), 'dx': array([ 1.]), 'dy': array([ 1.])})
P001 yt : [DEBUG ] 2014-12-16 11:22:28,562 Generating vorticity on defaultdict(<function <lambda> at 0x7fdf97c12578>, {'dz': array([ 1.]), 'dx': array([ 1.]), 'dy': array([ 1.])})
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:922: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
if bulk_velocity == None:
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:922: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
if bulk_velocity == None:
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:935: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
if bulk_velocity == None:
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:935: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
if bulk_velocity == None:
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:973: RuntimeWarning: divide by zero encountered in divide
((data["Temperature"]/data["MeanMolecularWeight"])**(1.5)) *
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:973: RuntimeWarning: divide by zero encountered in divide
((data["Temperature"]/data["MeanMolecularWeight"])**(1.5)) *
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:182: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
if bulk_velocity == None:
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:182: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
if bulk_velocity == None:
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:378: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
velocities = obtain_rv_vec(data)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:378: FutureWarning: comparison to `None` will result in an elementwise object comparison in the future.
velocities = obtain_rv_vec(data)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:225: RuntimeWarning: divide by zero encountered in divide
((data["Density"]/mw)**gammam1)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:225: RuntimeWarning: divide by zero encountered in divide
((data["Density"]/mw)**gammam1)
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:549: RuntimeWarning: invalid value encountered in multiply
-0.2193*logT0)))
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:549: RuntimeWarning: invalid value encountered in multiply
-0.2193*logT0)))
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1668: RuntimeWarning: invalid value encountered in divide
domegax_dt = data["VorticityX"] / data["VorticityRPGrowthX"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1668: RuntimeWarning: invalid value encountered in divide
domegax_dt = data["VorticityX"] / data["VorticityRPGrowthX"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1669: RuntimeWarning: invalid value encountered in divide
domegay_dt = data["VorticityY"] / data["VorticityRPGrowthY"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1669: RuntimeWarning: invalid value encountered in divide
domegay_dt = data["VorticityY"] / data["VorticityRPGrowthY"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1670: RuntimeWarning: invalid value encountered in divide
domegaz_dt = data["VorticityZ"] / data["VorticityRPGrowthZ"]
/home/goldbaum/Documents/yt-hg/yt/data_objects/universal_fields.py:1670: RuntimeWarning: invalid value encountered in divide
domegaz_dt = data["VorticityZ"] / data["VorticityRPGrowthZ"]
P001 yt : [DEBUG ] 2014-12-16 11:22:28,696 Re-examining hierarchy
P000 yt : [DEBUG ] 2014-12-16 11:22:28,698 Re-examining hierarchy
P001 yt : [DEBUG ] 2014-12-16 11:22:28,699 Appending object to DD0046 (type: <class 'yt.data_objects.hierarchy.AMRRegion'>)
P000 yt : [DEBUG ] 2014-12-16 11:22:28,699 Appending object to DD0046 (type: <class 'yt.data_objects.hierarchy.AMRRegion'>)
P001 yt : [DEBUG ] 2014-12-16 11:22:28,719 Going to obtain []
P001 yt : [DEBUG ] 2014-12-16 11:22:28,720 Appending object to DD0046 (type: <class 'yt.data_objects.hierarchy.AMRQuadTreeProj'>)
P001 yt : [DEBUG ] 2014-12-16 11:22:28,720 Setting node_name to None
P001 yt : [INFO ] 2014-12-16 11:22:28,720 Starting 'Initializing tree 0 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,720 Finishing 'Initializing tree 0 / 3 '
P000 yt : [DEBUG ] 2014-12-16 11:22:28,721 Going to obtain []
P001 yt : [INFO ] 2014-12-16 11:22:28,721 Starting 'Projecting level 0 / 3 '
P000 yt : [DEBUG ] 2014-12-16 11:22:28,721 Appending object to DD0046 (type: <class 'yt.data_objects.hierarchy.AMRQuadTreeProj'>)
P000 yt : [DEBUG ] 2014-12-16 11:22:28,721 Setting node_name to None
P000 yt : [INFO ] 2014-12-16 11:22:28,721 Starting 'Initializing tree 0 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,722 Finishing 'Initializing tree 0 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,722 Starting 'Projecting level 0 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,726 Finishing 'Projecting level 0 / 3 '
P001 yt : [DEBUG ] 2014-12-16 11:22:28,726 End of projecting level level 0, memory usage 8.008e-02
P001 yt : [INFO ] 2014-12-16 11:22:28,726 Starting 'Initializing tree 1 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,726 Finishing 'Initializing tree 1 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,726 Finishing 'Projecting level 0 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,726 Starting 'Projecting level 1 / 3 '
P000 yt : [DEBUG ] 2014-12-16 11:22:28,727 End of projecting level level 0, memory usage 8.008e-02
P000 yt : [INFO ] 2014-12-16 11:22:28,727 Starting 'Initializing tree 1 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,727 Finishing 'Initializing tree 1 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,727 Starting 'Projecting level 1 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,746 Finishing 'Projecting level 1 / 3 '
P001 yt : [DEBUG ] 2014-12-16 11:22:28,746 End of projecting level level 1, memory usage 8.008e-02
P001 yt : [INFO ] 2014-12-16 11:22:28,747 Starting 'Initializing tree 2 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,747 Finishing 'Initializing tree 2 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,747 Starting 'Projecting level 2 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,759 Finishing 'Projecting level 2 / 3 '
P001 yt : [DEBUG ] 2014-12-16 11:22:28,759 End of projecting level level 2, memory usage 8.008e-02
P001 yt : [INFO ] 2014-12-16 11:22:28,759 Starting 'Initializing tree 3 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,759 Finishing 'Initializing tree 3 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,760 Starting 'Projecting level 3 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,779 Finishing 'Projecting level 1 / 3 '
P000 yt : [DEBUG ] 2014-12-16 11:22:28,780 End of projecting level level 1, memory usage 8.008e-02
P000 yt : [INFO ] 2014-12-16 11:22:28,780 Starting 'Initializing tree 2 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,780 Finishing 'Initializing tree 2 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,780 Starting 'Projecting level 2 / 3 '
P001 yt : [INFO ] 2014-12-16 11:22:28,803 Finishing 'Projecting level 3 / 3 '
P001 yt : [DEBUG ] 2014-12-16 11:22:28,803 End of projecting level level 3, memory usage 8.008e-02
P001 yt : [DEBUG ] 2014-12-16 11:22:28,809 Opening MPI Barrier on 1
File "test.py", line 21, in <module>
do_parallel(pf)
File "test.py", line 17, in do_parallel
do(c, pf)
File "test.py", line 12, in do
proj = pf.h.proj(2, 'Density', source=cube)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 1757, in __init__
self._refresh_data()
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 313, in _refresh_data
self.get_data()
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 1923, in get_data
if self.serialize: self._store_fields(field, self._node_name)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 980, in _store_fields
passthrough = True)
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 232, in in_order
comm.barrier()
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 511, in barrier
traceback.print_stack()
P000 yt : [INFO ] 2014-12-16 11:22:28,829 Finishing 'Projecting level 2 / 3 '
P000 yt : [DEBUG ] 2014-12-16 11:22:28,830 End of projecting level level 2, memory usage 8.008e-02
P000 yt : [INFO ] 2014-12-16 11:22:28,830 Starting 'Initializing tree 3 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,830 Finishing 'Initializing tree 3 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,830 Starting 'Projecting level 3 / 3 '
P000 yt : [INFO ] 2014-12-16 11:22:28,832 Finishing 'Projecting level 3 / 3 '
P000 yt : [DEBUG ] 2014-12-16 11:22:28,832 End of projecting level level 3, memory usage 8.008e-02
P000 yt : [DEBUG ] 2014-12-16 11:22:28,837 Opening MPI Barrier on 0
File "test.py", line 21, in <module>
do_parallel(pf)
File "test.py", line 17, in do_parallel
do(c, pf)
File "test.py", line 12, in do
proj = pf.h.proj(2, 'Density', source=cube)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 1757, in __init__
self._refresh_data()
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 313, in _refresh_data
self.get_data()
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 1923, in get_data
if self.serialize: self._store_fields(field, self._node_name)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 980, in _store_fields
passthrough = True)
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 232, in in_order
comm.barrier()
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 511, in barrier
traceback.print_stack()
P000 yt : [INFO ] 2014-12-16 11:22:28,839 Projection completed
P000 yt : [DEBUG ] 2014-12-16 11:22:28,839 Appending object to DD0046 (type: <class 'yt.data_objects.hierarchy.AMRRegion'>)
P001 yt : [INFO ] 2014-12-16 11:22:28,839 Projection completed
P000 yt : [DEBUG ] 2014-12-16 11:22:28,839 Going to obtain []
P000 yt : [DEBUG ] 2014-12-16 11:22:28,839 Appending object to DD0046 (type: <class 'yt.data_objects.hierarchy.AMRQuadTreeProj'>)
P000 yt : [DEBUG ] 2014-12-16 11:22:28,839 Setting node_name to None
P001 yt : [DEBUG ] 2014-12-16 11:22:28,840 Opening MPI Barrier on 1
File "test.py", line 21, in <module>
do_parallel(pf)
File "test.py", line 16, in do_parallel
for c in parallel_objects(cs):
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 452, in parallel_objects
my_communicator.barrier()
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 511, in barrier
traceback.print_stack()
P000 yt : [INFO ] 2014-12-16 11:22:28,840 Starting 'Initializing tree 0 / 1 '
P000 yt : [INFO ] 2014-12-16 11:22:28,840 Finishing 'Initializing tree 0 / 1 '
P000 yt : [INFO ] 2014-12-16 11:22:28,840 Starting 'Projecting level 0 / 1 '
P000 yt : [INFO ] 2014-12-16 11:22:28,848 Finishing 'Projecting level 0 / 1 '
P000 yt : [DEBUG ] 2014-12-16 11:22:28,848 End of projecting level level 0, memory usage 8.105e-02
P000 yt : [INFO ] 2014-12-16 11:22:28,849 Starting 'Initializing tree 1 / 1 '
P000 yt : [INFO ] 2014-12-16 11:22:28,849 Finishing 'Initializing tree 1 / 1 '
P000 yt : [INFO ] 2014-12-16 11:22:28,849 Starting 'Projecting level 1 / 1 '
P000 yt : [INFO ] 2014-12-16 11:22:28,864 Finishing 'Projecting level 1 / 1 '
P000 yt : [DEBUG ] 2014-12-16 11:22:28,864 End of projecting level level 1, memory usage 8.105e-02
P000 yt : [DEBUG ] 2014-12-16 11:22:28,868 Opening MPI Barrier on 0
File "test.py", line 21, in <module>
do_parallel(pf)
File "test.py", line 17, in do_parallel
do(c, pf)
File "test.py", line 12, in do
proj = pf.h.proj(2, 'Density', source=cube)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 1757, in __init__
self._refresh_data()
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 313, in _refresh_data
self.get_data()
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 1923, in get_data
if self.serialize: self._store_fields(field, self._node_name)
File "/home/goldbaum/Documents/yt-hg/yt/data_objects/data_containers.py", line 980, in _store_fields
passthrough = True)
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 232, in in_order
comm.barrier()
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 511, in barrier
traceback.print_stack()
P000 yt : [INFO ] 2014-12-16 11:22:28,868 Projection completed
P000 yt : [DEBUG ] 2014-12-16 11:22:28,868 Opening MPI Barrier on 0
File "test.py", line 21, in <module>
do_parallel(pf)
File "test.py", line 16, in do_parallel
for c in parallel_objects(cs):
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 452, in parallel_objects
my_communicator.barrier()
File "/home/goldbaum/Documents/yt-hg/yt/utilities/parallel_tools/parallel_analysis_interface.py", line 511, in barrier
traceback.print_stack()
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