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ammarcsj
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mschwoer
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Feb 13, 2026
| ion_cols: | ||
| - Peptide Key | ||
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| fragpipe_precursor: |
Contributor
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just noting: l.1363 was "fragpipe_precursors"
| # Check if mod_seq_charge nodes exist (fragment-level data) | ||
| mod_seq_charge_nodes = anytree.search.findall(root_node, filter_=lambda node: node.type == "mod_seq_charge") | ||
| if len(mod_seq_charge_nodes) > 0: | ||
| MISSINGVAL_TEST_LEVEL = "mod_seq_charge" |
Contributor
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(nit) Comment with # Scenario 1: missing here
| MISSINGVAL_TEST_LEVEL = None | ||
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| def determine_missingval_test_level(root_node): |
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| # Set the test level if not already determined | ||
| if MISSINGVAL_TEST_LEVEL is None: | ||
| determine_missingval_test_level(root_node) |
Contributor
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could this be
MISSINGVAL_TEST_LEVEL = determine_missingval_test_level(root_node)
then you don't need to have global MISSINGVAL_TEST_LEVEL in determine_missingval_test_level
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| if MISSINGVAL_TEST_LEVEL == "mod_seq_charge": | ||
| return anytree.search.findall(root_node, filter_=lambda node: node.type == "mod_seq_charge") | ||
| else: # "base" |
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The counting statistics module had an error on fragpipe data, because the tree format was not correctly recognized as reported here #105
Implemented a new function to determine the appropriate level for missing value statistical testing based on the tree structure, which is then used subsequently.