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Add option to split output according to predicates #14

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Merged
gouttegd merged 1 commit into from
Dec 16, 2025
Merged

Add option to split output according to predicates #14

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23 changes: 20 additions & 3 deletions cli/src/main/java/org/incenp/obofoundry/sssom/cli/SimpleCLI.java
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Original file line number Diff line number Diff line change
Expand Up @@ -198,6 +198,11 @@ private static class OutputOptions {
description = "Split the set along subject and object prefix names and write the split sets in the specified directory.")
String splitDirectory;

@Option(names = "--split-with-predicates",
description = "When splitting, include the predicate CURIE in the split identifier.")
boolean splitWithPredicates;


@Option(names = { "-c", "--force-cardinality" },
hidden = true,
description = "Include mapping cardinality values.")
Expand Down Expand Up @@ -646,7 +651,7 @@ private void writeOutput(MappingSet set) {
}

if ( outputOpts.splitDirectory != null ) {
writeSplitSet(set, outputOpts.splitDirectory);
writeSplitSet(set, outputOpts.splitDirectory, outputOpts.splitWithPredicates);
return; // Skip writing the full set when writing splits
}
boolean stdout = outputOpts.file.equals("-");
Expand All @@ -660,7 +665,7 @@ private void writeOutput(MappingSet set) {
}
}

private void writeSplitSet(MappingSet ms, String directory) {
private void writeSplitSet(MappingSet ms, String directory, boolean splitWithPredicates) {
File dir = new File(directory);
if ( !dir.isDirectory() && !dir.mkdirs() ) {
helper.error("cannot create directory %s", directory);
Expand All @@ -677,7 +682,19 @@ private void writeSplitSet(MappingSet ms, String directory) {
String subjectPrefixName = pm.getPrefixName(mapping.getSubjectId());
String objectPrefixName = pm.getPrefixName(mapping.getObjectId());
if ( subjectPrefixName != null && objectPrefixName != null ) {
String splitId = subjectPrefixName + "-to-" + objectPrefixName;
String splitId;
if (splitWithPredicates) {
String predicatePrefixName = pm.getPrefixName(mapping.getPredicateId());
if (predicatePrefixName != null) {
splitId = subjectPrefixName + "-" + pm.shortenIdentifier(mapping.getPredicateId()) + "-" + objectPrefixName;
splitId = splitId.replace(":", "_");
} else {
splitId = subjectPrefixName + "-to-" + objectPrefixName;
}
} else {
splitId = subjectPrefixName + "-to-" + objectPrefixName;
}

mappingsBySplit.computeIfAbsent(splitId, k -> new ArrayList<Mapping>()).add(mapping);
}
}
Expand Down