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Fix: Metadata of Particle Patches #75

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Jun 18, 2024
+14 −0
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Fix: Metadata of Particle Patches #75

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14 changes: 14 additions & 0 deletions openpmd_validator/createExamples_h5.py
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Original file line number Diff line number Diff line change
Expand Up @@ -535,6 +535,14 @@ def write_particles(f, iteration):
particlePatches["extent/y"].attrs["unitSI"] = offset["y"].attrs["unitSI"]
particlePatches["extent/z"].attrs["unitSI"] = offset["z"].attrs["unitSI"]

# particle patches are spatial bounding boxes
particlePatches["offset"].attrs["unitDimension"] = \
np.array([1.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0 ], dtype=np.float64)
particlePatches["extent"].attrs["unitDimension"] = \
np.array([1.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0 ], dtype=np.float64)
# L M T I theta N J
# Dimension of Length per component

# domain decomposition shall be 1D along x (but positions are still 3D)
# we can therefor make the other components constant
particlePatches["offset/y"].attrs["value"] = np.float32(0.0) # full size
Expand All @@ -560,6 +568,12 @@ def write_particles(f, iteration):
particlePatches['offset/x'][rank] = rank * grid_layout[0] / mpi_size
particlePatches['extent/x'][rank] = grid_layout[0] / mpi_size

# unitless indices & counters
particlePatches["numParticles"].attrs["unitDimension"] = \
np.array([0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0 ], dtype=np.float64)
particlePatches["numParticlesOffset"].attrs["unitDimension"] = \
np.array([0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0 ], dtype=np.float64)


def main():
# Open an exemple file
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