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vp_extended_qc_parser.py
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vp_extended_qc_parser.py
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""" module to parse Extended QC files
"""
import re
from dataclasses import dataclass
from datetime import datetime
from pathlib import Path
import pandas as pd
from pprint import pprint
@dataclass
class ExtendedQcFields:
source_line: int
station_number: int
source_index: int
sweep_number: int
serial_number: int
vibrator_id: int
crew_number: int
fleet_number: int
sweep_id: int
shot_id: int
sweep_counter: int
sweep_type: str
force: int
gga_string: str
gsa_string: str
gst_string: str
vtg_string: str
zda_string: str
ptnl_string: str
time_break: datetime
vss_file_number: int
vss_sample_interval: int
time_end_to_up: int
pad_up_time: datetime
pad_down_time: datetime
time_up_to_down: int
time_down_to_switch_on: int
time_down_to_ready: int
time_down_to_sweep: int
sweep_checksum: str
param_checksum: str
qc_window: int
attributes_df: pd.DataFrame
df_columns = [
"time",
"valid",
"phase",
"force",
"dist",
"visc",
"stiff",
"md",
"vd",
"tm",
"peak_force",
"rm_force",
"freq",
"target",
"limit_t",
"limit_m",
"limit_v",
"limit_f",
"limit_r",
]
def get_int(val):
try:
return int(float(val))
except ValueError:
return -1
def get_datetime(val, fmt):
try:
return datetime.strptime(val.strip(), fmt)
except ValueError:
return None
def concat_df(df, val):
df_column_vals = []
try:
val_list = val.split()
df_column_vals.append(float(val_list[0]))
df_column_vals[1:] = [int(el) for el in val_list[1:]]
except ValueError:
df_column_vals = [None] * len(df_columns)
df = pd.concat(
[df, pd.DataFrame([df_column_vals], columns=df_columns)], ignore_index=True
)
return df
def read_line_generator(filename):
with open(filename, mode="rt") as file_handler:
while True:
line = file_handler.readline()
if not line:
break
yield line
def parse_line(ext_qc, line):
if matches := re.match(r"^(% VibProHD V24.14)\s*$", line):
return ext_qc, "complete"
elif matches := re.match(r"^% Source Line\s*:(.+)$", line):
ext_qc.source_line = get_int(matches.group(1))
elif matches := re.match(r"^% Station Number\s*:(.+)$", line):
ext_qc.station_number = get_int(matches.group(1))
elif matches := re.match(r"^% Source Index\s*:(.+)$", line):
ext_qc.source_index = get_int(matches.group(1))
elif matches := re.match(r"^% Sweep#\s*:(.+)$", line):
ext_qc.sweep_number = get_int(matches.group(1))
elif matches := re.match(r"^% Serial Number\s*:(.+)$", line):
ext_qc.serial_number = get_int(matches.group(1))
elif matches := re.match(r"^% Vibrator ID\s*:(.+)$", line):
ext_qc.vibrator_id = get_int(matches.group(1))
elif matches := re.match(r"^% Crew Number\s*:(.+)$", line):
ext_qc.crew_number = get_int(matches.group(1))
elif matches := re.match(r"^% Fleet Number\s*:(.+)$", line):
ext_qc.fleet_number = get_int(matches.group(1))
elif matches := re.match(r"^% Sweep ID\s*:(.+)$", line):
ext_qc.sweep_id = get_int(matches.group(1))
elif matches := re.match(r"^% Shot ID\s*:(.+)$", line):
ext_qc.shot_id = get_int(matches.group(1))
elif matches := re.match(r"^% SweepCounter\s*:(.+)$", line):
ext_qc.sweep_counter = get_int(matches.group(1))
elif matches := re.match(r"^% Sweep\s+Type\s*:(.+)$", line):
ext_qc.sweep_type = matches.group(1).strip()
elif matches := re.match(r"^% Force\s*:(.+)$", line):
ext_qc.force = get_int(matches.group(1))
elif matches := re.match(r"^% GGA\s*:(.+)$", line):
ext_qc.gga_string = matches.group(1).strip()
elif matches := re.match(r"^% GSA\s*:(.+)$", line):
ext_qc.gsa_string = matches.group(1).strip()
elif matches := re.match(r"^% GST\s*:(.+)$", line):
ext_qc.gst_string = matches.group(1).strip()
elif matches := re.match(r"^% VTG\s*:(.+)$", line):
ext_qc.vtg_string = matches.group(1).strip()
elif matches := re.match(r"^% ZDA\s*:(.+)$", line):
ext_qc.zda_string = matches.group(1).strip()
elif matches := re.match(r"^% PTNL\s*\(GGK\)\s*:(.+)$", line):
ext_qc.ptnl_string = matches.group(1).strip()
elif matches := re.match(r"^% Time Break\s*:(.+)\[.+$", line):
ext_qc.time_break = get_datetime(matches.group(1), "%y/%m/%d %H:%M:%S.%f")
elif matches := re.match(r"^% VSS File Number\s*:(.+)$", line):
ext_qc.vss_file_number = get_int(matches.group(1))
elif matches := re.match(r"^% VSS Sample Interval\s*:(.+)msec.*$", line):
ext_qc.vss_sample_interval = get_int(matches.group(1))
elif matches := re.match(r"^% time end of prev sweep to up\s*:(.+)ms.*$", line):
ext_qc.time_end_to_up = get_int(matches.group(1))
elif matches := re.match(r"^% pad up\s*:(.+)$", line):
ext_qc.pad_up_time = get_datetime(matches.group(1), "%y/%m/%d %H:%M:%S.%f")
elif matches := re.match(r"^% pad down\s*:(.+)$", line):
ext_qc.pad_down_time = get_datetime(matches.group(1), "%y/%m/%d %H:%M:%S.%f")
elif matches := re.match(r"^% time up to down\s*:(.+)ms.*$", line):
ext_qc.time_up_to_down = get_int(matches.group(1))
elif matches := re.match(r"^% time down to pressure switch ON\s*:(.+)ms.*$", line):
ext_qc.time_down_to_switch_on = get_int(matches.group(1))
elif matches := re.match(r"^% time down to ready\s*:(.+)ms.*$", line):
ext_qc.time_down_to_ready = get_int(matches.group(1))
elif matches := re.match(r"^% time down to sweep\s*:(.+)ms.*$", line):
ext_qc.time_down_to_sweep = get_int(matches.group(1))
elif matches := re.match(r"^% Sweep checksum\s*:(.+)$", line):
ext_qc.sweep_checksum = matches.group(1).strip()
elif matches := re.match(r"^% Param checksum\s*:(.+)$", line):
ext_qc.param_checksum = matches.group(1).strip()
elif matches := re.match(r"^% QC Window\s*:(.+)msec.*$", line):
ext_qc.qc_window = get_int(matches.group(1))
elif matches := re.match(r"^\d+\.\d(.+)$", line):
ext_qc.attributes_df = concat_df(ext_qc.attributes_df, matches.group(0))
return ext_qc, None
def extended_qc_generator(fn: Path) -> list:
read_lines = read_line_generator(fn)
ext_qc = ExtendedQcFields(*[None] * len(ExtendedQcFields.__annotations__))
ext_qc.attributes_df = pd.DataFrame(columns=df_columns)
for line in read_lines:
ext_qc, status = parse_line(ext_qc, line)
if status == "complete" and ext_qc.source_line:
yield ext_qc
ext_qc = ExtendedQcFields(*[None] * len(ExtendedQcFields.__annotations__))
ext_qc.attributes_df = pd.DataFrame(columns=df_columns)
yield ext_qc
if __name__ == "__main__":
filename = Path("./data_files/230629_VIB08_test.txt")
extended_qc_iterator = extended_qc_generator(filename)
for i, extended_qc_record in enumerate(extended_qc_iterator):
print(f"record: {i}:\n{extended_qc_record.attributes_df.loc[[0]]}")
pprint(extended_qc_record)