landon/Submissions-App
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity

Update to autofill.

Browse Source
This commit is contained in:
Landon Wark
2023-09-20 09:19:59 -05:00
parent 0c843d1561
commit 82ab06efad
13 changed files with 378 additions and 149 deletions
Download Patch File Download Diff File Expand all files Collapse all files

36
src/submissions/backend/db/models/submissions.py
View File

@@ -13,8 +13,6 @@ from sqlalchemy.ext.associationproxy import association_proxy
import uuid
from pandas import Timestamp
from dateutil.parser import parse
import pprint
from tools import check_not_nan
logger = logging.getLogger(f"submissions.{__name__}")
@@ -348,7 +346,7 @@ class BasicSample(Base):
return value
def __repr__(self) -> str:
return f"<{self.sample_type.replace('_', ' ').title(). replace(' ', '')}({self.submitter_id})>"
return f"<{self.sample_type.replace('_', ' ').title().replace(' ', '')}({self.submitter_id})>"
def set_attribute(self, name, value):
# logger.debug(f"Setting {name} to {value}")
@@ -417,56 +415,36 @@ class WastewaterSample(BasicSample):
logger.debug(f"Validating {key}: {value}")
return value or self.submitter_id
# def __init__(self, **kwargs):
# # Had a problem getting collection date from excel as text only.
# if 'collection_date' in kwargs.keys():
# logger.debug(f"Got collection_date: {kwargs['collection_date']}. Attempting parse.")
# if isinstance(kwargs['collection_date'], str):
# logger.debug(f"collection_date is a string...")
# kwargs['collection_date'] = parse(kwargs['collection_date'])
# logger.debug(f"output is {kwargs['collection_date']}")
# # Due to the plate map being populated with RSL numbers, we have to do some shuffling.
# try:
# kwargs['rsl_number'] = kwargs['submitter_id']
# except KeyError as e:
# logger.error(f"Error using {kwargs} for submitter_id")
# try:
# check = check_not_nan(kwargs['ww_full_sample_id'])
# except KeyError:
# logger.error(f"Error using {kwargs} for ww_full_sample_id")
# check = False
# if check:
# kwargs['submitter_id'] = kwargs["ww_full_sample_id"]
# super().__init__(**kwargs)
def set_attribute(self, name:str, value):
"""
Set an attribute of this object. Extends parent.
Args:
name (str): _description_
value (_type_): _description_
name (str): name of the attribute
value (_type_): value to be set
"""
# Due to the plate map being populated with RSL numbers, we have to do some shuffling.
# logger.debug(f"Input - {name}:{value}")
match name:
case "submitter_id":
# If submitter_id already has a value, stop
if self.submitter_id != None:
return
# otherwise also set rsl_number to the same value
else:
super().set_attribute("rsl_number", value)
case "ww_full_sample_id":
# If value present, set ww_full_sample_id and make this the submitter_id
if value != None:
super().set_attribute(name, value)
name = "submitter_id"
case 'collection_date':
# If this is a string use dateutils to parse into date()
if isinstance(value, str):
logger.debug(f"collection_date {value} is a string. Attempting parse...")
value = parse(value)
case "rsl_number":
if value == None:
value = self.submitter_id
# logger.debug(f"Output - {name}:{value}")
super().set_attribute(name, value)