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Merge HDF5 reconstruction

Pierre Paleo requested to merge hdf5_merge into master

Currently, one HDF5 file is written for each stack of reconstructed slices. After that, the files are merged by creating a master file with a virtual dataset. However, absolute files paths are used, when it should be relative files paths.

Arguably, the best would be to

  • Create a sub-directory, ex. mydataset_rec_files
  • Put each slices stack inside this directory: mydataset_rec_files/mydataset_rec_XXXX.hdf5
  • Create the master file mydataset_rec.hdf5 outside of this directory, and make the virtual dataset target mydataset_rec_files/mydataset_rec_XXXX.h5 (relative path).

Close #144 (closed)

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