Adding h5 data loaders about deepreg HOT 3 CLOSED

@s-sd @mathpluscode
We discussed a bit. I think we should simplify the folder structure for h5 files to take advantage of the format. Let's do

• a single folder, say "train", with only two files, fixed_images.h5 and moving_images.h5;
• optionally, depends on the loader, two extra files, moving_labels.h5 and moving_images.h5
• use the keys string in the key-value pairs (value being the image/label volume) to indicate the structure instead; e.g.
  a) for paired, requires the same key-string as corresponding pair (between the four files), without requiring any further naming convention;
  b) for unpaired, probably no requirement at all;
  c) for grouped, the key-string has to start with "group", separate the group index with image/label index by "-", e.g. "group1-1", "group1-2"... "group2-1", "group2-2"
  d) let's not worry about multiple-part files for now (it is the same code really)

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@YipengHu , Thank you! I will try to make these changes today

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@YipengHu @mathpluscode

I have fixed the directory structure now and have updated the h5_loader functions to incorporate these new directory structure changes. The directories now look like:

For unpaired:

• train
  • images.h5 (keys=['subject1', 'subject2' ...])
  • labels.h5 (keys=['subject1', 'subject2' ...])

For paired:

• train
  • fixed_images.h5 (keys=['subject1', 'subject2' ...])
  • fixed_labels.h5 (keys=['subject1', 'subject2' ...])
  • moving_images.h5 (keys=['subject1', 'subject2' ...])
  • moving_labels.h5 (keys=['subject1', 'subject2' ...])

For grouped:

• train
  • images.h5 (keys=['group-1-1', 'group-1-2', 'group-2-1'...])
  • labels.h5 (keys=['group-1-1', 'group-1-2', 'group-2-1'...])

The test folders for each follow a similar structure.

It would be great if you could have a look just to make sure that this sort of directory structure is similar to what you expect.

Thank you!

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