def load_data(*args, **kwargs):
"""Loads the data and checks its validity."""
# Merge the data.
loaders = [pm.Loader(filename) for filename in args[0]]
data = pm.Merger(*loaders)
for mouse in sorted(data.getGroup()):
print(mouse)
# Update timeline.ini
conf = cp.ConfigParser()
conf.read("timeline/timeline.ini")
conf["Phase 1"]["start"] = kwargs["start"]
conf["Phase 1"]["end"] = kwargs["end"]
with open(os.path.join("timeline/timeline.ini"), "w") as file:
conf.write(file)
# Read in period of analysis from timeline.ini.
timeline = pm.Timeline("timeline/timeline.ini")
start, end = timeline.getTimeBounds("Phase 1")
# Check for any problems (indicated in the log) during the period of interest.
data_validator = pm.DataValidator(pm.PresenceLogAnalyzer())
validator_report = data_validator(data)
no_presence_problems = pm.FailureInspector("Presence")
if no_presence_problems(validator_report, (start, end)):
pass
else:
print("Possible transponder problems")
return data, start, end
def load_data(*args, **kwargs):
"""This function loads the data and checks its validity."""
import pymice as pm
# Files relevent to Habituation 1 (hab1) period.
dataFiles = [0 for x in range(len(args))]
for i in range(0, len(args)):
dataFiles[i] = args[i]
# Merge the data.
loaders = [pm.Loader(filename) for filename in dataFiles]
data = pm.Merger(*loaders)
print("Done loading data.")
for mouse in sorted(data.getGroup()):
print(mouse)
print("Ignore Pump group, it is related to another experiment.")
# Read in hab1 period from timeline.ini.
timeline = pm.Timeline('../timeline/hab1.ini')
start1, end1 = timeline.getTimeBounds(kwargs['phase1'])
start2, end2 = timeline.getTimeBounds(kwargs['phase2'])
print("%s:\t%s - %s" % (kwargs['phase1'], start1, end1))
print("%s:\t%s - %s" % (kwargs['phase2'], start2, end2))
# Check for any problems (indicated in the log) during the period of interest.
dataValidator = pm.DataValidator(pm.PresenceLogAnalyzer())
validatorReport = dataValidator(data)
noPresenceProblems = pm.FailureInspector('Presence')
if noPresenceProblems(validatorReport, (start1, end1)):
if noPresenceProblems(validatorReport, (start2, end2)):
print("Presences OK.")
return data, start1, end1, start2, end2
visits_corners = PL.getVisits(mice=animal)
for v in visits_corners:
if v.Module == "PlaceLearning" and v.PlaceError == 0:
assignedcorner = v.Corner
return (assignedcorner)
###########################################################################################
#find and open the data, assign it a name
ending = '\*.zip'
msg, title = "Please select the folder containing your Place and Reversal learning data files", "Import PL/RL Data"
data = g.diropenbox(msg, title)
data = data + ending
PL_data = sorted(glob.glob(data), key=os.path.getmtime)
loaders = [pm.Loader(filename, getEnv=True) for filename in PL_data]
PL = pm.Merger(*loaders, getEnv=True)
msg, title = "Name your Data", "Name Data"
name = g.enterbox(msg, title)
excelname = name + ".xlsx"
writer = pd.ExcelWriter(excelname, engine='xlsxwriter')
#set up data frame
cols = ["Name", "Sex", "Group", "Phase", "Phase Cycle", "Avg NPs per Visit"]
df_Place = pd.DataFrame(columns=cols)
#Extract first phase of Place Learning for each half hour analysis
phases = get_phases(PL.getEnvironment())
phase_count = len(phases)