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authorBonfaceKilz2021-07-29 23:14:44 +0300
committerBonfaceKilz2021-08-03 15:49:50 +0300
commit3804d64d6eed6c9b5fbb95758a84014ff026705d (patch)
tree208f9991ef95a938996ece24892ac48f3fd03f08
parent52d53eb90aa0a4fbaab713704f4894e652cb91f3 (diff)
downloadgenenetwork2-3804d64d6eed6c9b5fbb95758a84014ff026705d.tar.gz
wqflask: views: Get the publishdata_id from the file
-rw-r--r--wqflask/wqflask/views.py12
1 files changed, 10 insertions, 2 deletions
diff --git a/wqflask/wqflask/views.py b/wqflask/wqflask/views.py
index 9a961f26..0f1df123 100644
--- a/wqflask/wqflask/views.py
+++ b/wqflask/wqflask/views.py
@@ -572,11 +572,19 @@ def update_phenotype():
f"{trait_name}.{phenotype_id}."
f"{current_time}.csv")
file_.save(new_file_name)
+ publishdata_id = ""
+ lines = []
+ with open(new_file_name, "r") as f:
+ lines = f.read()
+ first_line = lines.split('\n', 1)[0]
+ publishdata_id = first_line.split("Id:")[-1].strip()
+ with open(new_file_name, "w") as f:
+ f.write(lines.split("\n\n")[-1])
csv_ = get_trait_csv_sample_data(conn=conn,
trait_name=str(trait_name),
phenotype_id=str(phenotype_id))
with open(uploaded_file_name, "w") as f_:
- f_.write(csv_)
+ f_.write(csv_.split("\n\n")[-1])
r = run_cmd(cmd=("/home/bonface/opt/genenetwork3/bin/csvdiff "
f"'{uploaded_file_name}' '{new_file_name}' "
"--format json"))
@@ -584,9 +592,9 @@ def update_phenotype():
f"{trait_name}."
f"{phenotype_id}.{current_time}.json")
with open(diff_output, "w") as f:
- print(r.get("output"))
dict_ = json.loads(r.get("output"))
dict_.update({"author": author.decode('utf-8')})
+ dict_.update({"publishdata_id": publishdata_id})
dict_.update({"timestamp": datetime.datetime.now().strftime(
"%Y-%m-%d %H:%M:%S")})
f.write(json.dumps(dict_))