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Add decompressed OME-Zarr dataset size to iohub info #248

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merged 7 commits into from
Nov 6, 2024
Merged

Add decompressed OME-Zarr dataset size to iohub info #248

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f374116
adding datastore size to info
edyoshikun Sep 26, 2024
e70d168
adding uncompressed string
edyoshikun Sep 28, 2024
58ec908
adding changes for readability
edyoshikun Oct 15, 2024
5b1ab9a
typo
edyoshikun Oct 15, 2024
e5b3d51
Only show decompressed size due to zarr-python bug
ziw-liu Nov 6, 2024
11864e0
add test for size formatting
ziw-liu Nov 6, 2024
d728430
add test for CLI size info
ziw-liu Nov 6, 2024
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4 changes: 4 additions & 0 deletions iohub/reader.py
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Original file line number Diff line number Diff line change
Expand Up @@ -262,11 +262,15 @@ def print_info(path: StrOrBytesPath, verbose=False):
print("Zarr hierarchy:")
reader.print_tree()
positions = list(reader.positions())
total_GB = len(positions) * (positions[0][1][0].nbytes) / 1e9
msgs.append(f"Positions:\t\t {len(positions)}")
msgs.append(f"Chunk size:\t\t {positions[0][1][0].chunks}")
msgs.append(f"Store Size [GB]:\t\t {total_GB:.2f}")
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else:
total_GB = reader["0"].nbytes / 1e9
msgs.append(f"(Z, Y, X) scale (um):\t {tuple(reader.scale[2:])}")
msgs.append(f"Chunk size:\t\t {reader['0'].chunks}")
msgs.append(f"Size [GB]:\t\t {total_GB:.2f}")
if verbose:
msgs.extend(
[
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