hdf_to_image

The hdf_to_image function converts a hdf representation into a stack of images.

Some analyses may require the extraction of voxel data contained within an hdf file and conversion to an internal Python type. One extension of this application is the direct conversion of a voxel array into an image stack, which may be utilized for subsequent downscaling and meshing activities.

The hdf_to_image functionality is provided as a command line interface. Providing a HDF file with voxel dataset of interest, image data can be extracted to a separate folder.

Contents of hdf_to_image.yml:

cli_entry_points:
- hdf_to_image

hdf_data_path: tests/data/machined_cylinder.h5 #input hdf file
voxel_data_location: VoxelData/machined_cylinder #internal dataset path in hdf file

image_parent_dir: tests/data/output/ # folder to contain folder of images
image_slice_normal: Z
image_output_type: .tif

hdf_to_image hdf_to_image.yml produces:

Success: database created from file: hdf_to_image.yml
key, value, type
---, -----, ----
cli_entry_points, ['hdf_to_image'], <class 'list'>
hdf_data_path, tests/data/machined_cylinder.h5, <class 'str'>
voxel_data_location, VoxelData/machined_cylinder, <class 'str'>
image_parent_dir, tests/data/output/, <class 'str'>
image_slice_normal, Z, <class 'str'>
image_output_type, .tif, <class 'str'>