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authorAlexanderKabui2022-11-09 16:45:11 +0300
committerAlexanderKabui2022-11-21 14:06:42 +0300
commitdcab54a0da61c72b20bdad649fb2c488dc4da261 (patch)
treec97650f0dcc98f6bd12d4d66ff530cc95a47afdc /wqflask
parent3781312b3fecc2227a7a17057bc6718a64faefb4 (diff)
downloadgenenetwork2-dcab54a0da61c72b20bdad649fb2c488dc4da261.tar.gz
minor refactoring
Diffstat (limited to 'wqflask')
-rw-r--r--wqflask/wqflask/correlation/show_corr_results.py64
1 files changed, 35 insertions, 29 deletions
diff --git a/wqflask/wqflask/correlation/show_corr_results.py b/wqflask/wqflask/correlation/show_corr_results.py
index f3082a89..0d748818 100644
--- a/wqflask/wqflask/correlation/show_corr_results.py
+++ b/wqflask/wqflask/correlation/show_corr_results.py
@@ -53,8 +53,6 @@ def set_template_vars(start_vars, correlation_data):
correlation_data['table_json'] = correlation_json_for_table(
start_vars,
correlation_data,
- correlation_data['this_trait'],
- correlation_data['this_dataset'],
target_dataset_ob)
if target_dataset_ob.type == "ProbeSet":
@@ -76,8 +74,8 @@ def set_template_vars(start_vars, correlation_data):
def apply_filters(trait, target_trait, target_dataset, **filters):
def __p_val_filter__(p_lower, p_upper):
- return not (float(trait.get('corr_coefficient', 0.0)) >= p_lower and
- float(trait.get('corr_coefficient', 0.0)) <= p_upper)
+
+ return not (p_lower <= float(trait.get("corr_coefficient",0.0)) <= p_upper)
def __min_filter__(min_expr):
if (target_dataset['type'] in ["ProbeSet", "Publish"] and target_trait['mean']):
@@ -90,25 +88,32 @@ def apply_filters(trait, target_trait, target_dataset, **filters):
if target_dataset["type"] in ["ProbeSet", "'Geno"] and location_type == "gene":
- return ((location_chr != None and (target_trait["chr"] != location_chr)
+ return (
+ ((location_chr!=None) and (target_trait["chr"]!=location_chr))
or
- (min_location_mb != None) and (
- float(target_trait['mb']) < min_location_mb)
+ ((min_location_mb!= None) and (
+ float(target_trait['mb']) < min_location_mb)
+ )
+
or
- max_location_mb != None) and
+ ((max_location_mb != None) and
(float(target_trait['mb']) > float(max_location_mb)
))
+
+ )
elif target_dataset["type"] in ["ProbeSet", "Publish"]:
- return ((location_chr != None and (target_trait["lrs_chr"] != location_chr)
- or
- (min_location_mb != None) and (
- float(target_trait['lrs_mb']) < float(min_location_mb))
- or
- (max_location_mb != None) and (
+
+ return ((location_chr!=None) and (target_trait["lrs_chr"] != location_chr)
+ or
+ ((min_location_mb != None) and (
+ float(target_trait['lrs_mb']) < float(min_location_mb)))
+ or
+ ((max_location_mb != None) and (
float(target_trait['lrs_mb']) > float(max_location_mb))
)
- )
+ )
+
return True
# check if one of the condition is not met i.e One is True
@@ -261,7 +266,7 @@ def populate_table(dataset_metadata, target_dataset, this_dataset, corr_results,
for (idx, trait) in enumerate(corr_results)]
-def correlation_json_for_table(start_vars, correlation_data, this_trait, this_dataset, target_dataset_ob):
+def correlation_json_for_table(start_vars, correlation_data, target_dataset_ob):
"""Return JSON data for use with the DataTable in the correlation result page
Keyword arguments:
@@ -270,21 +275,22 @@ def correlation_json_for_table(start_vars, correlation_data, this_trait, this_da
this_dataset -- Dataset of this_trait, as a dict
target_dataset_ob - Target dataset, as a Dataset ob
"""
- this_trait = correlation_data['this_trait']
- this_dataset = correlation_data['this_dataset']
- target_dataset = target_dataset_ob.as_dict()
- corr_results = correlation_data['correlation_results']
- dataset_metadata = generate_table_metadata({name for trait in corr_results
- for (name, _val) in trait.items()},
+
+ traits = set()
+
+ for trait in correlation_data["correlation_results"]:
+ traits.add(list(trait)[0])
+
+ dataset_metadata = generate_table_metadata(traits,
correlation_data["traits_metadata"],
target_dataset_ob)
-
- results = populate_table(dataset_metadata,
- target_dataset,
- this_dataset, corr_results,
- get_user_filters(start_vars))
- return json.dumps([result for result in results if result])
+ return json.dumps([result for result in (
+ populate_table(dataset_metadata=dataset_metadata,
+ target_dataset=target_dataset_ob.as_dict(),
+ this_dataset=correlation_data['this_dataset'],
+ corr_results=correlation_data['correlation_results'],
+ filters=get_user_filters(start_vars))) if result])
def get_formatted_corr_type(corr_type, corr_method):
@@ -386,4 +392,4 @@ def get_header_fields(data_type, corr_method):
'N',
'Sample p(r)']
- return header_fields
+ return header_fields \ No newline at end of file