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authorAlexander Kabui2022-01-19 13:52:35 +0300
committerBonfaceKilz2022-02-09 08:49:56 +0300
commit51418eff4f0caa3082e233ff8eefd413fce9dd09 (patch)
treea94b9786a9d2249acb1a3843a5c0277ee11fc2d9
parente4f533890820c9ba138f334958e41e82175bc415 (diff)
downloadgenenetwork2-51418eff4f0caa3082e233ff8eefd413fce9dd09.tar.gz
minor refactoring
-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