[MNT] add scripts (#1127)

* add scripts

* update gitignore to ignore secrets

* get openapi back in sync

Author: jdkent

.gitignore

@@ -1,3 +1,4 @@
+.neurostuff_secrets
 historical/
 
 # node

store/backend/neurostore/openapi

@@ -0,0 +1,47 @@
+from sqlalchemy import exists, or_
+from neurostore.models.data import Study, Analysis, Point, Image
+from neurostore.database import db
+
+# Get studies without base_study_id that have analyses with points or images
+orphans_with_analyses = Study.query.filter(
+    Study.base_study_id == None,  # Studies without base_study_id
+    or_(
+        # Has analysis with points
+        exists().where(
+            Analysis.study_id == Study.id,
+            exists().where(Point.analysis_id == Analysis.id)
+        ),
+        # Has analysis with images
+        exists().where(
+            Analysis.study_id == Study.id,
+            exists().where(Image.analysis_id == Analysis.id)
+        )
+    )
+).all()
+
+print(f"Found {len(orphans_with_analyses)} orphan studies with analyses containing points or images:")
+for study in orphans_with_analyses:
+    print(f"\nStudy ID: {study.id}")
+    print(f"Name: {study.name}")
+    
+    # Count points and images for this study
+    point_count = db.session.query(Point)\
+        .join(Analysis)\
+        .filter(Analysis.study_id == study.id)\
+        .count()
+        
+    image_count = db.session.query(Image)\
+        .join(Analysis)\
+        .filter(Analysis.study_id == study.id)\
+        .count()
+        
+    print(f"Points: {point_count}")
+    print(f"Images: {image_count}")
+    
+    # Print identifiers if available
+    if study.pmid:
+        print(f"PMID: {study.pmid}")
+    if study.doi:
+        print(f"DOI: {study.doi}")
+    if study.pmcid:
+        print(f"PMCID: {study.pmcid}")