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commit before refactor to use pyqt6 input field names

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This commit is contained in:
Landon Wark
2023-03-14 13:13:10 -05:00
parent 285ccecd73
commit fc334155ff
11 changed files with 193 additions and 150 deletions
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95
src/submissions/frontend/functions.py
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@@ -1,24 +1,23 @@
# from ..models import *
from backend.db.models import *
from backend.db import lookup_regent_by_type_name
from tools import check_not_nan
# from backend.db import lookup_kittype_by_name
import logging
import numpy as np
from backend.excel.parser import SheetParser
from PyQt6.QtWidgets import (
QMainWindow, QLabel, QToolBar,
QTabWidget, QWidget, QVBoxLayout,
QPushButton, QFileDialog,
QLineEdit, QMessageBox, QComboBox, QDateEdit, QHBoxLayout,
QSpinBox, QScrollArea
)
logger = logging.getLogger(f"submissions.{__name__}")
def check_kit_integrity(sub:BasicSubmission|KitType, reagenttypes:list|None=None) -> dict|None:
"""
Ensures all reagents expected in kit are listed in Submission
Args:
sub (BasicSubmission | KitType): Object containing complete list of reagent types.
reagenttypes (list | None, optional): List to check against complete list. Defaults to None.
Returns:
dict|None: Result object containing a message and any missing components.
"""
logger.debug(type(sub))
# What type is sub?
match sub:
case BasicSubmission():
ext_kit_rtypes = [reagenttype.name for reagenttype in sub.extraction_kit.reagent_types]
@@ -27,10 +26,13 @@ def check_kit_integrity(sub:BasicSubmission|KitType, reagenttypes:list|None=None
ext_kit_rtypes = [reagenttype.name for reagenttype in sub.reagent_types]
logger.debug(f"Kit reagents: {ext_kit_rtypes}")
logger.debug(f"Submission reagents: {reagenttypes}")
# check if lists are equal
check = set(ext_kit_rtypes) == set(reagenttypes)
logger.debug(f"Checking if reagents match kit contents: {check}")
# what reagent types are in both lists?
common = list(set(ext_kit_rtypes).intersection(reagenttypes))
logger.debug(f"common reagents types: {common}")
# if lists are equal return no problem
if check:
result = None
else:
@@ -39,38 +41,39 @@ def check_kit_integrity(sub:BasicSubmission|KitType, reagenttypes:list|None=None
return result
def insert_reagent_import(ctx:dict, item:str, prsr:SheetParser|None=None) -> QComboBox:
add_widget = QComboBox()
add_widget.setEditable(True)
# Ensure that all reagenttypes have a name that matches the items in the excel parser
query_var = item.replace("lot_", "")
logger.debug(f"Query for: {query_var}")
if prsr != None:
if isinstance(prsr.sub[item], np.float64):
logger.debug(f"{prsr.sub[item]['lot']} is a numpy float!")
try:
prsr.sub[item] = int(prsr.sub[item]['lot'])
except ValueError:
pass
# query for reagents using type name from sheet and kit from sheet
logger.debug(f"Attempting lookup of reagents by type: {query_var}")
# below was lookup_reagent_by_type_name_and_kit_name, but I couldn't get it to work.
relevant_reagents = [item.__str__() for item in lookup_regent_by_type_name(ctx=ctx, type_name=query_var)]#, kit_name=prsr.sub['extraction_kit'])]
output_reg = []
for reagent in relevant_reagents:
if isinstance(reagent, set):
for thing in reagent:
output_reg.append(thing)
elif isinstance(reagent, str):
output_reg.append(reagent)
relevant_reagents = output_reg
# if reagent in sheet is not found insert it into items
if prsr != None:
logger.debug(f"Relevant reagents for {prsr.sub[item]}: {relevant_reagents}")
if str(prsr.sub[item]['lot']) not in relevant_reagents and prsr.sub[item]['lot'] != 'nan':
if check_not_nan(prsr.sub[item]['lot']):
relevant_reagents.insert(0, str(prsr.sub[item]['lot']))
logger.debug(f"New relevant reagents: {relevant_reagents}")
add_widget.addItems(relevant_reagents)
return add_widget
# Below is depreciated:
# def insert_reagent_import(ctx:dict, item:str, prsr:SheetParser|None=None) -> QComboBox:
# add_widget = QComboBox()
# add_widget.setEditable(True)
# # Ensure that all reagenttypes have a name that matches the items in the excel parser
# query_var = item.replace("lot_", "")
# logger.debug(f"Query for: {query_var}")
# if prsr != None:
# if isinstance(prsr.sub[item], np.float64):
# logger.debug(f"{prsr.sub[item]['lot']} is a numpy float!")
# try:
# prsr.sub[item] = int(prsr.sub[item]['lot'])
# except ValueError:
# pass
# # query for reagents using type name from sheet and kit from sheet
# logger.debug(f"Attempting lookup of reagents by type: {query_var}")
# # below was lookup_reagent_by_type_name_and_kit_name, but I couldn't get it to work.
# relevant_reagents = [item.__str__() for item in lookup_regent_by_type_name(ctx=ctx, type_name=query_var)]#, kit_name=prsr.sub['extraction_kit'])]
# output_reg = []
# for reagent in relevant_reagents:
# if isinstance(reagent, set):
# for thing in reagent:
# output_reg.append(thing)
# elif isinstance(reagent, str):
# output_reg.append(reagent)
# relevant_reagents = output_reg
# # if reagent in sheet is not found insert it into items
# if prsr != None:
# logger.debug(f"Relevant reagents for {prsr.sub[item]}: {relevant_reagents}")
# if str(prsr.sub[item]['lot']) not in relevant_reagents and prsr.sub[item]['lot'] != 'nan':
# if check_not_nan(prsr.sub[item]['lot']):
# relevant_reagents.insert(0, str(prsr.sub[item]['lot']))
# logger.debug(f"New relevant reagents: {relevant_reagents}")
# add_widget.addItems(relevant_reagents)
# return add_widget