public void saveDefaultApplyFilter(ProgramMergeFilter newDefaultApplyFilter) {
		PluginTool tool = plugin.getTool();
		Options options = tool.getOptions(DIFF_OPTIONS);

		saveReplaceOption(options, newDefaultApplyFilter, PROGRAM_CONTEXT);
		saveReplaceOption(options, newDefaultApplyFilter, BYTES);
		saveReplaceOption(options, newDefaultApplyFilter, REFERENCES);
		saveReplaceOption(options, newDefaultApplyFilter, BOOKMARKS);
		saveReplaceOption(options, newDefaultApplyFilter, PROPERTIES);
		saveReplaceOption(options, newDefaultApplyFilter, FUNCTIONS);
		saveReplaceOption(options, newDefaultApplyFilter, SOURCE_MAP);

		saveMergeOption(options, newDefaultApplyFilter, PLATE_COMMENTS);
		saveMergeOption(options, newDefaultApplyFilter, PRE_COMMENTS);
		saveMergeOption(options, newDefaultApplyFilter, EOL_COMMENTS);
		saveMergeOption(options, newDefaultApplyFilter, REPEATABLE_COMMENTS);
		saveMergeOption(options, newDefaultApplyFilter, POST_COMMENTS);

		saveMergeOption(options, newDefaultApplyFilter, FUNCTION_TAGS);

		saveCodeUnitReplaceOption(options, newDefaultApplyFilter, CODE_UNITS);
		saveSymbolMergeOption(options, newDefaultApplyFilter, SYMBOLS);

		tool.setConfigChanged(true);
	}
Saves the indicated merge filter as the default apply settings.
@param defaultApplyFilter merge filter indicating default apply settings.
Ghidra/Features/ProgramDiff/src/main/java/ghidra/app/plugin/core/diff/DiffApplySettingsOptionManager.java