aboutsummaryrefslogtreecommitdiff
diff options
context:
space:
mode:
-rw-r--r--wqflask/wqflask/ctl/gn3_ctl_analysis.py23
1 files changed, 21 insertions, 2 deletions
diff --git a/wqflask/wqflask/ctl/gn3_ctl_analysis.py b/wqflask/wqflask/ctl/gn3_ctl_analysis.py
index 50623562..71e96fc7 100644
--- a/wqflask/wqflask/ctl/gn3_ctl_analysis.py
+++ b/wqflask/wqflask/ctl/gn3_ctl_analysis.py
@@ -27,6 +27,8 @@ def parse_geno_data(dataset_group_name) ->dict:
# get marker and marker names
+ return parser
+
markers = []
markernames = []
for marker in parser.markers:
@@ -86,16 +88,33 @@ def parse_form_data(form_data: dict):
return form_data
-def run_ctl():
+def run_ctl(requestform):
"""function to make an api call
to gn3 and run ctl"""
CtlObj = CtlDatabase()
- ctl_api = f"{GN3_LOCAL_URL}/api/wgcna/run_wgcna"
+ ctl_api = f"{GN3_LOCAL_URL}/api/ctl/run_ctl"
+
+ form_data = parse_form_data(requestform)
+
+ pheno_data = parse_geno_data(CtlObj.dataset.group.name)
+
+
+ geno_data = parse_phenotype_data(form_data["trait_db_list"])
+
+ # refactor below
+
+ pheno_data["individuals"] = geno_data["individuals"]
+
response = requests.post(ctl_api, json={
+ "genoData":geno_data,
+ "phenoData":pheno_data,
+
+ **form_data,
+
})
# todo check for errors