def cpLstExtdFiles(listfn, pathfrom, pathto, extds):
"""
get a list of names, copy the corresponding files with a certain extd name to another dir
"""
from suffix import getAbsPaths_multi_extd, checkPaths
import shutil
lst = getLst(listfn)
for fn in lst:
rootdir = os.path.join(pathfrom, fn)
fullnames = getAbsPaths_multi_extd(rootdir, extds)
checkPaths(fullnames)
for fullname in fullnames:
shutil.copy(fullname, pathto)
def collectSvrData(self):
"""
construct the data chart for SVR,
use the -all-DecoyRepEner.txt only
"""
raw_data_paths = suffix.getAbsPaths_multi_extd(self.raw_data_dir, self.extds[-1:])
suffix.checkPaths(raw_data_paths)
tmp_data = []
for file in raw_data_paths:
tmp_data.append(pd.read_csv(file))
self.svr_sheet = pd.concat(tmp_data, ignore_index=True)
self.svr_sheet.headers = self.rep_ener_columns
self.svr_sheet = self.svr_sheet.drop(['Unnamed: 0'], axis=1) # rule out trash columns
self.svr_sheet = self.svr_sheet.sort(columns='mcc', ascending=False)
self.svr_sheet.index = range(len(data.index))
ofn = self.svr
def collectSvcData(self):
"""
construct the data chart for SVC,
only the -high-DecoyRepEner.txt and -low-DecoyRepEner.txt used
"""
raw_data_paths = suffix.getAbsPaths_multi_extd(self.raw_data_dir, self.extds[0:2]) # high and low
#raw_data_paths = suffix.getAbsPaths_multi_extd(self.raw_data_dir, self.extds[0:1]) # only high, for testing
suffix.checkPaths(raw_data_paths)
tmp_data = []
for file in raw_data_paths:
tmp_data.append(pd.read_csv(file))
self.svc_sheet = pd.concat(tmp_data, ignore_index=True)
self.svc_sheet.headers = self.rep_ener_columns
self.svc_sheet = self.svc_sheet.drop(['Unnamed: 0'], axis=1) # rule out trash columns
self.svc_sheet = self.svc_sheet.sort(columns='mcc', ascending=False)
self.svc_sheet.index = range(len(self.svc_sheet.index))
ofn = self.svc
