Simplify mapping metric to labels image #658
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These arguments can be helpful for general logging. Pretty-print them for readability.
- Change Excel export error to a warning - Catach missing Jinja2 error and output warning
… image Use the labels metadata so that user do not have to specify the path manually.
The registered image has been specified through the level, which assumes that the file has been generated through the labels level remap function. To allow more flexibility in specifying a labels image, users can now give any registered suffix, which is also more consistent with other MM tasks. The function has also been renamed to reflect its more general use in mapping a metric to labels rather than only generating a difference image.
All the children of a given label are often needed from a table, when the hierarchical JSON file is not present. Add a function to obtain these children recursively, assuming that the given table has a column of immediate parents for each label.
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The labels metadata are now loaded automatically if possible when mapping a metric to a labels image. The labels image suffix can also be specified directly as a CLI argument (eg
--reg_suffixes annotationLevel1.mhd), which is more consistent with other functions that use this CLI argument.Additional changes: