Implement full-dimension chunking support in Templates

[BrianMichell]

Resolves #626 by applying appropriate logic.

Tested that code below sets the amplitude Variable chunk size to (64, 64, 1501) where 1501 is discovered at runtime.

if __name__ == "__main__":
    from mdio import segy_to_mdio
    from segy.schema import HeaderField, ScalarType
    from segy.standards import get_segy_standard
    from mdio.builder.template_registry import get_template
    import os

    os.environ["MDIO__IMPORT__SAVE_SEGY_FILE_HEADER"] = "1"
    os.environ["MDIO__IMPORT__CPU_COUNT"] = "16"

    input_segy = "filt_mig.sgy"
    output_mdio = "filt_mig.mdio"

    input_spec = get_segy_standard(1)
    input_fields = [
        HeaderField(name="inline", byte=17, format=ScalarType.INT32),
        HeaderField(name="crossline", byte=13, format=ScalarType.INT32),
        HeaderField(name="cdp_x", byte=81, format=ScalarType.INT32),
        HeaderField(name="cdp_y", byte=85, format=ScalarType.INT32),
    ]
    input_spec = input_spec.customize(trace_header_fields=input_fields)

    template = get_template("PostStack3DTime")
    template.full_chunk_shape = (64, 64, -1)

    segy_to_mdio(
        segy_spec=input_spec,
        mdio_template=template,
        input_path=input_segy,
        output_path=output_mdio,
        overwrite=True,
    )

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 87.01%. Comparing base (c3ba558) to head (c1cfc89).
⚠️ Report is 205 commits behind head on main.

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #723      +/-   ##
==========================================
+ Coverage   85.30%   87.01%   +1.70%     
==========================================
  Files          46       86      +40     
  Lines        2219     4812    +2593     
  Branches      306      320      +14     
==========================================
+ Hits         1893     4187    +2294     
- Misses        281      553     +272     
- Partials       45       72      +27     

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[tasansal]

@BrianMichell is this needed at all? What happens today on main if you specify chunks as (..., -1). Upstream libraries typically can handle -1 chunk size natively.

[BrianMichell]

@BrianMichell is this needed at all? What happens today on main if you specify chunks as (..., -1). Upstream libraries typically can handle -1 chunk size natively.

Traceback (most recent call last):
  File "test.py", line 24, in <module>
    template.full_chunk_shape = (64, 64, -1)
    ^^^^^^^^^^^^^^^^^^^^^^^^^
  File "site-packages/mdio/builder/templates/base.py", line 158, in full_chunk_shape
    raise ValueError(msg)
ValueError: Chunk shape (64, 64, -1) does not match dimension sizes ()

This PR fixes the error. Error generated with pypi version 1.0.8