repair cedar loading tool overwrite

Author: michael-conway

pcor_tools/pcor_cedar/cedar_resource_reader_1_5_1.py

@@ -188,30 +188,30 @@ def extract_project_data(contents_json, key='PROJECT'):
         """
         project = PcorIntermediateProjectModel()
         project.id = contents_json[key]["ProjecCode"]["@value"]
-        project.name = PcorTemplateParser.sanitize_column(contents_json[key]["project_name"]["@value"])
-        project.short_name = PcorTemplateParser.sanitize_column(contents_json[key]["project_short_name"]["@value"])
-        project.code = PcorTemplateParser.sanitize_column(contents_json[key]["ProjecCode"]["@value"])
+        project.name = PcorTemplateParser.sanitize_column(contents_json[key]["project_name"]["@value"], True)
+        project.short_name = PcorTemplateParser.sanitize_column(contents_json[key]["project_short_name"]["@value"], True)
+        project.code = PcorTemplateParser.sanitize_column(contents_json[key]["ProjecCode"]["@value"], True)
 
         sponsors_in_json = contents_json[key]["project_sponsor"]
         for sponsor in sponsors_in_json:
             if sponsor["@value"]:
-               project.project_sponsor.append(PcorTemplateParser.sanitize_column(sponsor["@value"]))
+               project.project_sponsor.append(PcorTemplateParser.sanitize_column(sponsor["@value"]), True)
 
         sponsors_in_json = contents_json[key]["project_sponsor_other"]
         for sponsor in sponsors_in_json:
             if sponsor["@value"]:
-                project.project_sponsor_other.append(PcorTemplateParser.sanitize_column(sponsor["@value"]))
+                project.project_sponsor_other.append(PcorTemplateParser.sanitize_column(sponsor["@value"]), True)
 
 
         sponsor_types = contents_json[key]["project_sponsor_type"]
         for item in sponsor_types:
             if item["@value"]:
-                project.project_sponsor_type.append(PcorTemplateParser.sanitize_column())
+                project.project_sponsor_type.append(PcorTemplateParser.sanitize_column(item["@value"]))
 
         sponsor_other = contents_json[key]["project_sponsor_type_other"]
         for type in sponsor_other:
             if type["@value"]:
-                project.project_sponsor_type_other.append(PcorTemplateParser.sanitize_column())
+                project.project_sponsor_type_other.append(PcorTemplateParser.sanitize_column(type["@value"]))
 
         project.project_url = PcorTemplateParser.sanitize_column(contents_json[key]["project_url"]["@id"])
         project.dbgap_accession_number = project.code