Inspect 3D dataset with napariΒΆ

napari is a Python library for n-dimensional image visualisation, annotation, and analysis.

Load HDF5 dataset

h5file = "/mnt/PETRA/SED/BEATS/IH/BEATS_first_scan-20230511T170626/BEATS_first_scan-20230511T170626.h5"
projs, _, _, _ = dxchange.read_aps_32id(h5file, sino=(800, 820, 1), proj=(500, 700, 1), exchange_rank=0)

INFO:dxchange.reader:Data successfully imported: /mnt/PETRA/SED/BEATS/IH/BEATS_first_scan-20230511T170626/BEATS_first_scan-20230511T170626.h5
INFO:dxchange.reader:Data successfully imported: /mnt/PETRA/SED/BEATS/IH/BEATS_first_scan-20230511T170626/BEATS_first_scan-20230511T170626.h5
INFO:dxchange.reader:Data successfully imported: /mnt/PETRA/SED/BEATS/IH/BEATS_first_scan-20230511T170626/BEATS_first_scan-20230511T170626.h5
ERROR:dxchange.reader:Unrecognized hdf5 dataset: "exchange/theta"
INFO:dxchange.reader:Data successfully imported: /mnt/PETRA/SED/BEATS/IH/BEATS_first_scan-20230511T170626/BEATS_first_scan-20230511T170626.h5
INFO:dxchange.reader:Data successfully imported: /mnt/PETRA/SED/BEATS/IH/BEATS_first_scan-20230511T170626/BEATS_first_scan-20230511T170626.h5
INFO:dxchange.reader:Data successfully imported: /mnt/PETRA/SED/BEATS/IH/BEATS_first_scan-20230511T170626/BEATS_first_scan-20230511T170626.h5
WARNING:dxchange.exchange:num_angles(2001) is not the same as tomo.shape[0](200)

import napari

viewer = napari.view_image(projs)

napari viewer

napari image viewer - first BEATS scan