From 67e8f12e103f48329d8b3e38125c0e84b9dc089d Mon Sep 17 00:00:00 2001
From: zsloan
Date: Thu, 17 May 2018 16:32:44 +0000
Subject: Added script to quantile normalize a data set and enter its
 normalized sample data into ElasticSearch

Added option to replace trait page sample/strain values with normalized ones

Began editing Lei's scatterplot code

Changed elasticsearch_tools' get_elasticsearch_connection so that it can also be used for purposes other than user authentication (by adding a "for_user" parameter)
---
 wqflask/base/trait_collection.py | 53 ----------------------------------------
 1 file changed, 53 deletions(-)
 delete mode 100644 wqflask/base/trait_collection.py

(limited to 'wqflask/base/trait_collection.py')

diff --git a/wqflask/base/trait_collection.py b/wqflask/base/trait_collection.py
deleted file mode 100644
index d388a3af..00000000
--- a/wqflask/base/trait_collection.py
+++ /dev/null
@@ -1,53 +0,0 @@
-class TraitCollection(object):
-    
-    def __init__(self, is_anon=False):
-        self.is_anon = is_anon
-        
-        
-    @app.route("/collections/remove", methods=('POST',))
-    def remove_traits():
-        if is_anon:
-            AnonCollection.remove_traits()
-        else:
-            UserCollection.remove_traits()
-            
-        params = request.form
-        print("params are:", params)
-        uc_id = params['uc_id']
-        uc = model.UserCollection.query.get(uc_id)
-        traits_to_remove = params.getlist('traits[]')
-        print("traits_to_remove are:", traits_to_remove)
-        traits_to_remove = process_traits(traits_to_remove)
-        print("\n\n  after processing, traits_to_remove:", traits_to_remove)
-        all_traits = uc.members_as_set()
-        print("  all_traits:", all_traits)
-        members_now = all_traits - traits_to_remove
-        print("  members_now:", members_now)
-        print("Went from {} to {} members in set.".format(len(all_traits), len(members_now)))
-        uc.members = json.dumps(list(members_now))
-        uc.changed_timestamp = datetime.datetime.utcnow()
-        db_session.commit()
-    
-        # We need to return something so we'll return this...maybe in the future
-        # we can use it to check the results
-        return str(len(members_now))
-
-    def __init__(self, anon_id)
-        self.anon_key = anon_key
-        self.collection_members = Redis.smembers(self.anon_id)
-        print("self.collection_members is:", self.collection_members)
-        self.num_members = len(self.collection_members)
-        
-
-    @app.route("/collections/remove", methods=('POST',))
-    def remove_traits(traits_to_remove):
-        print("traits_to_remove:", traits_to_remove)
-        for trait in traits_to_remove:
-            Redis.srem(self.anon_id, trait)
-        members_now = self.collection_members - traits_to_remove
-        print("members_now:", members_now)
-        print("Went from {} to {} members in set.".format(len(self.collection_members), len(members_now)))
-
-        # We need to return something so we'll return this...maybe in the future
-        # we can use it to check the results
-        return str(len(members_now))
-- 
cgit v1.2.3