smiuser/hpos-data
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read and save data to excel file

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This commit is contained in:
Pritimay Sarkar
2023-08-24 09:33:52 +05:30
parent f8bd0f68b5
commit d41eee32d5
2 changed files with 49 additions and 9 deletions
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2
scripts/consolidated_data.py
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@@ -72,7 +72,7 @@ if __name__ == "__main__":
df = df.sort_values(by=['testTime'], ascending=False)
# df = df.drop(['resultData', "reportUploadTime", "userImageURL", "testType", "birthYear", "testStatus"], axis=1)
df = df[["_id", "calculatedRatio", "deviceId", "deviceRatio", "deviceType", "kitSerial", "led1Average", "led1Buffer", "led1Sample", "led2Average", "led2Buffer", "led2Sample", "location", "deviceSerialNumber", "name", "testTime"]]
df.rename(columns={'deviceSerialNumber': "loginId", "calculatedRatio": "calibratedRatio"}, inplace = True)
df.rename(columns={'deviceSerialNumber': "login_id", "calculatedRatio": "calibrated_ratio", "led1Buffer": "427_buffer_intensity", "led2Buffer": "555_buffer_intensity", "led1Sample": "427_sample_intensity", "led2Sample": "555_sample_intensity", "led1Average": "427_absorbance", "led2Average": "555_absorbance"}, inplace = True)
df = df.reindex(sorted(df.columns), axis=1)
df.to_excel(writer, sheet_name = 'data', index=False)
writer.close()

56
scripts/serial_qc.py
View File

@@ -1,16 +1,36 @@
import serial
import pandas as pd
import os.path
from datetime import datetime
import math
import time
from tqdm import tqdm
if __name__ == "__main__":
class Device:
def __init__(self, accuracy, precision):
self.accuracy = accuracy
self.precision = precision
def perform_hpos_test(repeat_no):
try:
data_file = 'data.xlsx'
if os.path.exists(data_file):
df = pd.read_excel('data.xlsx')
else:
df = pd.DataFrame(columns=["sol", "427_buffer_intensity", "555_buffer_intensity", "427_sample_intensity", "555_sample_intensity", "427_absorbance", "555_absorbance", "absorbance_ratio", "time"])
time.sleep(5)
with serial.Serial('/dev/cu.usbserial-1420', 115200, timeout=1, parity=serial.PARITY_NONE) as ser:
x = ser.read() # read one byte
s = ser.read(10) # read up to ten bytes (timeout)
line = ser.readline() # read a '\n' terminated line
x = ser.read()
s = ser.read(10)
line = ser.readline()
print(x)
print(s)
print(line)
# perform_blanking = input("Do you want to perform blanking?(Y/N)")
ser.write(b'B')
while True:
x = ser.read()
@@ -32,12 +52,32 @@ if __name__ == "__main__":
line = ser.readline()
print(r)
if 'RESULT' in r.decode("utf-8") or 'REND' in r.decode('utf-8'):
print(r)
result = r.decode("utf-8").split(' ')
df = pd.concat([df, pd.DataFrame([{"sol": solution + '-' + str(repeat_no), "427_buffer_intensity": result[3], "555_buffer_intensity": result[3], "427_sample_intensity": result[5], "555_sample_intensity": result[6], "427_absorbance": math.log10(float(result[3]) / float(result[5])), "555_absorbance": math.log10(float(result[4]) / float(result[6])), "absorbance_ratio": math.log10(float(result[3]) / float(result[5])) / math.log10(float(result[4]) / float(result[6])), "time": datetime.today().strftime('%d-%m-%y %H:%M:%S')}])], ignore_index = True)
print(df)
writer = pd.ExcelWriter(data_file, engine = 'openpyxl')
df.to_excel(writer, sheet_name = 'data', index=False)
writer.close()
break
break
break
except serial.serialutil.SerialException:
print("connect device!")
except:
print("error!")
print("device is not connected!")
exit()
except Exception as err:
print("error!", err)
exit()
if __name__ == "__main__":
d = Device(0.01, 0.001)
solution = input("solution name: ")
repeats = int(input("number of repeats: "))
for repeat in tqdm(range(0, repeats)):
perform_hpos_test(repeat)