Warnings when plotting from a single file in directory
When a single state_phys
file is the only file in a directory, it can be loaded with load_sim_for_plot
, but the output.phys_fields.plot
function displays a lot of warnings when called:
In [1]: from fluidsim import load_sim_for_plot
In [2]: sim = load_sim_for_plot()
load params from file
/.fsnet/project/watu/2019/19INTSIM/sim_data/waves_coriolis/test/state_phys_t0015800.015.nc
Loading params from file
/.fsnet/project/watu/2019/19INTSIM/sim_data/waves_coriolis/test/state_phys_t0015800.015.nc
*************************************
Program fluidsim
sim: <class 'fluidsim.solvers.ns3d.strat.solver.Simul'>
sim.oper: <class 'fluidsim.operators.operators3d.OperatorsPseudoSpectral3D'>
sim.output: <class 'fluidsim.solvers.ns3d.strat.output.Output'>
sim.state: <class 'fluidsim.solvers.ns3d.strat.state.StateNS3DStrat'>
sim.time_stepping: <class 'fluidsim.solvers.ns3d.time_stepping.TimeSteppingPseudoSpectralNS3D'>
sim.init_fields: <class 'fluidsim.solvers.ns3d.init_fields.InitFieldsNS3D'>
sim.forcing: <class 'fluidsim.solvers.ns3d.forcing.ForcingNS3D'>
solver ns3d.strat, RK4 and sequential,
type fft: fluidfft.fft3d.with_pyfftw
nx = 4 ; ny = 4 ; nz = 4
Lx = 12 ; Ly = 12 ; Lz = 2
path_run =
/.fsnet/project/watu/2019/19INTSIM/sim_data/waves_coriolis/test
init_fields.type: constant
Initialization outputs:
sim.output.phys_fields: <class 'fluidsim.base.output.phys_fields3d.PhysFieldsBase3D'>
sim.output.spatial_means: <class 'fluidsim.solvers.ns3d.strat.output.spatial_means.SpatialMeansNS3DStrat'>
sim.output.spectra: <class 'fluidsim.solvers.ns3d.strat.output.spectra.SpectraNS3DStrat'>
sim.output.spect_energy_budg: <class 'fluidsim.solvers.ns3d.strat.output.spect_energy_budget.SpectralEnergyBudgetNS3DStrat'>
Memory usage at the end of init. (equiv. seq.): 160.23046875 Mo
Size of state_spect (equiv. seq.): 0.003072 Mo
In [3]: sim.output.phys_fields.plot('vz',equation='z=1.5')
/.fsnet/data/legi/calcul9/home/reneuve3ja/Dev/fluidsim/fluidsim/base/output/phys_fields.py:365: RuntimeWarning: divide by zero encountered in double_scalars
weight0 = 1 - np.abs(time - self.times[idx0]) / dt_save
/.fsnet/data/legi/calcul9/home/reneuve3ja/Dev/fluidsim/fluidsim/base/output/phys_fields.py:366: RuntimeWarning: divide by zero encountered in double_scalars
weight1 = 1 - np.abs(time - self.times[idx1]) / dt_save
/.fsnet/data/legi/calcul9/home/reneuve3ja/Dev/fluidsim/fluidsim/base/output/phys_fields3d.py:486: RuntimeWarning: invalid value encountered in true_divide
vecx_c / vmax,
/.fsnet/data/legi/calcul9/home/reneuve3ja/Dev/fluidsim/fluidsim/base/output/phys_fields3d.py:487: RuntimeWarning: invalid value encountered in true_divide
vecy_c / vmax,
/home/users/reneuve3ja/miniconda3/lib/python3.8/site-packages/matplotlib/quiver.py:678: RuntimeWarning: Mean of empty slice.
amean = a[~self.Umask].mean()
/home/users/reneuve3ja/miniconda3/lib/python3.8/site-packages/numpy/core/_methods.py:161: RuntimeWarning: invalid value encountered in double_scalars
ret = ret.dtype.type(ret / rcount)
/home/users/reneuve3ja/miniconda3/lib/python3.8/site-packages/matplotlib/quiver.py:748: RuntimeWarning: invalid value encountered in less
short = np.repeat(length < minsh, 8, axis=1)
/home/users/reneuve3ja/miniconda3/lib/python3.8/site-packages/matplotlib/quiver.py:762: RuntimeWarning: invalid value encountered in less
tooshort = length < self.minlength
Here the physical field vz
is plotted correctly as a contourf
, but the quiver
of the velocity field is not superimposed over it. Similarly, all velocity components can be plotted as contourf
, but the quiver
never works.