def testInteg():
from peakBBA import peakFitBBA
from monDimReduce import SAXSDimReduce
from input_file_parsing import parse_config
calibList = getAllCalibPath()
dataPath = expUsr('~/allSampleTest/')
configPath = expUsr('~/monHiTp/config')
fileList = glob.glob(os.path.join(dataPath, '*.tif'))
fileGen = (x for x in fileList)
config = parse_config(configPath)
if config:
QRange = (config['Qmin'], config['Qmax'])
ChiRange = (config['ChiMin'], config['ChiMax'])
# require all bounds to exist, currently can't check default limits
if (any(isinstance(n, str) for n in QRange)
or any(isinstance(m, str) for m in ChiRange)):
print('Pass found, ignoring Q,Chi limits')
QRange, ChiRange = None, None
peakShape = config['peakShape']
peakNo = config['peakNo']
fit_order = config['fit_order']
hiLimit = config['highlightLimit']
config['bkgdPath'] = expUsr('~/monHiTp/')
else:
#Qrange, peakShape, peakNo, fit_order, hiLimit = None, None, None, None, None
print('no config file')
start = time.time()
for f in fileGen:
if any(x in f for x in ['k1', 'k2', 'k3', 'a1', 'k5']):
c = calibList[0]
elif any(x in f for x in ['k6', 'k7']):
c = calibList[5]
elif any(x in f for x in ['k8a']):
c = calibList[1]
elif any(x in f for x in ['k9a']):
c = calibList[2]
elif any(x in f for x in ['r5', 'r15']):
c = calibList[4]
else:
c = calibList[3]
print(f + '\n<===>\n' + c)
SAXSDimReduce(c, f, config)
peakFitBBA(f, config)
end = time.time()
print(end - start)
print(len(fileList))
def process_IN_CREATE(self, event):
print('file created: {0}'.format(event.pathname))
filename = os.path.basename(event.pathname)
fileRoot, ext = os.path.splitext(filename)
if ext == '.tif':
print(filename + ' detected, processing')
########## Begin data reduction scripts ###########################
SAXSDimReduce(self.calibPath, event.pathname)
peakFitBBA(event.pathname)
FWHMmap(event.pathname)
print(filename + ' completed')
print(
'====================================================== Waiting...'
)
print('\n')
def process_IN_CREATE(self, event):
print('file created: {0}'.format(event.pathname))
filename = os.path.basename(event.pathname)
fileRoot, ext = os.path.splitext(filename)
if ext == '.tif':
print(filename + ' detected, processing')
########## Begin data reduction scripts ###########################
SAXSDimReduce(self.calibPath, event.pathname,
self.config) #QRange=QRange, ChiRange=ChiRange)
peakFitBBA(event.pathname, self.config)
########## Visualization #########################################
# Pulling info from master CSV
FWHMmap(event.pathname)
contrastMap(event.pathname, self.config['highlightLimit'])
print(event.pathname + ' completed')
print(
'====================================================== Waiting...'
)
print('\n')
has1DcsvFile = os.path.isfile(procPath)
if has1DcsvFile:
print('Skipping file: {}'.format(procPath))
continue
start = time.time()
print('{0}'.format(filePath))
print(filename + ' detected, processing')
########## Begin data reduction scripts ###########################
SAXSDimReduce(calibPath, filePath,
config) #QRange=QRange, ChiRange=ChiRange)
stage1int = time.time()
peakFitBBA(filePath, config)
stage2int = time.time()
########## Visualization #########################################
# Pulling info from master CSV
FWHMmap(filePath)
contrastMap(filePath, hiLimit)
print(filename + ' completed')
end = time.time()
loopTime += [(end - start)]
stage1Time += [(stage1int - start)]
stage2Time += [(stage2int - stage1int)]
#break
continue
start = time.time()
print('{0}'.format(filePath))
print(filename + ' detected, processing')
# fake a path in prev folder
# Assume name of format xxxxx_[index]_1D.csv
fakeName = filename[:-7]+'.tif'
fakePath = dataPath + fakeName
print(fakePath)
########## Begin data reduction scripts ###########################
stage1int = time.time()
peakFitBBA(fakePath, config)
stage2int = time.time()
########## Visualization #########################################
# Pulling info from master CSV
FWHMmap(fakePath)
contrastMap(fakePath, hiLimit)
print(filename + ' completed')
end = time.time()
loopTime += [(end-start)]
stage2Time += [(stage2int - stage1int)]
#break