def determineBestComboFromString(self, best_combo_string, combos,
processed_arguments):
gene_lists = processed_arguments.gene_lists
combine_gene_lists = processed_arguments.rsen_config.combine_gene_lists
analysis_type = processed_arguments.analysisType()
static_features = processed_arguments.static_features
for combo in combos:
feature_set_string = GeneListComboUtility.generateFeatureSetString(
combo, gene_lists, combine_gene_lists, analysis_type,
static_features)
if GeneListComboUtility.combosAreEquivalent(
feature_set_string, best_combo_string):
return combo
raise ValueError(
"Unable to determine feature set from given combo gene list and feature file combo: "
+ best_combo_string +
".\n Please make sure all gene lists and feature files in the combo "
+ "are present in the drug folder.")
def generateFeatureSetString(self, feature_set):
return GeneListComboUtility.generateFeatureSetString(feature_set, self.inputs.gene_lists,
self.inputs.rsen_config.combine_gene_lists,
self.inputs.analysisType(),
self.inputs.static_features)