progress in migration script

etc/fixtures/migrations/migrate-new-sections-phenotips-importer.js

@@ -24,8 +24,6 @@ if (typeof databaseName === 'undefined') {
  quit(1);
 }
 
-db = db.getSiblingDB(databaseName);
-
 // use new sections in phenotips importer in import_analysis_data to reconfigure database and move the data
 // can we just use the config in phenotips importer? without creating an array/object here?
 // const newSectionsRename = [
@@ -48,24 +46,45 @@ db = db.getSiblingDB(databaseName);
 // }
 // ]
 
+db = db.getSiblingDB(databaseName);
+
 try {
  const analyses = db.analyses.find();
  analyses.forEach(element => {
+ // print(element)
+
+ // from each analysis get each gene for the gene specific sections
+ // maybe store it in an array? 
+ genes = []
+ element.genomic_units.forEach(unit => {
+ if (unit.gene) {
+ genes.push(unit.gene)
+ }
+ })
+ print(genes)
+
+ //iterating through the genes array to append the gene sections here
+ genes.forEach(gene => {
+ print ("APPENDING GENE SECTIONS HERE TO element.sections")
+ })
+
  element.sections.forEach(section => {
- const value = Object.values(section)
-
- print(value)
- // add new sections to sections[] in each element
- // check if field already exists in analyses sections 
- //move field data
- // update
+ const value = Object.values(section)
+
+ // print(value)
+
+
+ // add new sections to sections[] in each element
+ // check if field already exists in analyses sections 
+ //move field data -- how????
 
-
- // db.genomic_units.update(
- // {'_id': element._id},
- // {'$set': element}
- // )
  })
+
+ // update 
+ // db.analyses.update(
+ // {'_id': element._id},
+ // {'$set': element}
+ // )
  });
 } catch (err) {
  console.log(err.stack);