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-rw-r--r--wqflask/wqflask/show_trait/SampleList.py67
1 files changed, 10 insertions, 57 deletions
diff --git a/wqflask/wqflask/show_trait/SampleList.py b/wqflask/wqflask/show_trait/SampleList.py
index ad78ebcc..10157558 100644
--- a/wqflask/wqflask/show_trait/SampleList.py
+++ b/wqflask/wqflask/show_trait/SampleList.py
@@ -1,21 +1,20 @@
from __future__ import absolute_import, print_function, division
-from flask import Flask, g
-
-from base import webqtlCaseData
-from utility import webqtlUtil, Plot, Bunch
-from base.trait import GeneralTrait
+import itertools
import numpy as np
-from scipy import stats
+from flask import Flask, g
from pprint import pformat as pf
+from scipy import stats
-import simplejson as json
-
-import itertools
+from base import webqtlCaseData
+from base.trait import GeneralTrait
+from utility import logger
+from utility import webqtlUtil
+from utility import Plot
+from utility import Bunch
-import utility.logger
-logger = utility.logger.getLogger(__name__ )
+logger = logger.getLogger(__name__ )
class SampleList(object):
def __init__(self,
@@ -35,8 +34,6 @@ class SampleList(object):
self.get_attributes()
- #self.sample_qnorm = get_transform_vals(self.dataset, this_trait)
-
if self.this_trait and self.dataset:
self.get_extra_attribute_values()
@@ -70,8 +67,6 @@ class SampleList(object):
self.sample_list.append(sample)
- #logger.debug("attribute vals are", pf(self.sample_attribute_values))
-
self.do_outliers()
def __repr__(self):
@@ -156,48 +151,6 @@ class SampleList(object):
return any(sample.variance for sample in self.sample_list)
-# def get_transform_vals(dataset, trait):
-# es = get_elasticsearch_connection(for_user=False)
-
-# logger.info("DATASET NAME:", dataset.name)
-
-# query = '{"bool": {"must": [{"match": {"name": "%s"}}, {"match": {"dataset": "%s"}}]}}' % (trait.name, dataset.name)
-
-# es_body = {
-# "query": {
-# "bool": {
-# "must": [
-# {
-# "match": {
-# "name": "%s" % (trait.name)
-# }
-# },
-# {
-# "match": {
-# "dataset": "%s" % (dataset.name)
-# }
-# }
-# ]
-# }
-# }
-# }
-
-# response = es.search( index = "traits", doc_type = "trait", body = es_body )
-# logger.info("THE RESPONSE:", response)
-# results = response['hits']['hits']
-
-# if len(results) > 0:
-# samples = results[0]['_source']['samples']
-
-# sample_dict = {}
-# for sample in samples:
-# sample_dict[sample['name']] = sample['qnorm']
-
-# #logger.info("SAMPLE DICT:", sample_dict)
-# return sample_dict
-# else:
-# return None
-
def natural_sort_key(x):
"""Get expected results when using as a key for sort - ints or strings are sorted properly"""