def matrix_from_cdf(cdffile, name):
data = ANDI_reader(cdffile)
print(name)
data.info()
tic = data.get_tic()
noise_lvl = window_analyzer(tic)
return build_intensity_matrix(data), noise_lvl
def matrix_from_cdf(cdffile, name):
'''
Intakes a .cdf file and produces an intensity matrix and a noise level .
The noise level info is obtained by producing a tic and using the window_analyzer
method to extract a noise approximation.
@param cdffile: Absolutepath to a .cdf file to be processed
@param name: file name associated with .cdf file
@return: An intensity matrix and a corresponding noise level value
'''
data = ANDI_reader(cdffile)
print(name)
data.info()
tic = data.get_tic()
noise_lvl = window_analyzer(tic)
print('nz=', noise_lvl)
return build_intensity_matrix(data), noise_lvl
"""proc.py
"""
import sys
sys.path.append("/x/PyMS")
from pyms.GCMS.IO.ANDI.Function import ANDI_reader
# read the raw data
andi_file = "/x/PyMS/data/gc01_0812_066.cdf"
data = ANDI_reader(andi_file)
# info about raw data
data.info()
# trim data between scans 1000 and 2000
data.trim(1000, 2000)
# info about trimmed raw data
data.info()
# reload
data = ANDI_reader(andi_file)
# trim data between retention times, 6.5 minutes to 21 minutes
data.trim("6.5m", "21m")
# info about trimmed raw data
data.info()
