def _makeScan(self, scanData):
"""Make scan object from raw data."""
# parse peaks
points = self._parsePoints(scanData)
if scanData['spectrumType'] == 'discrete':
for x, p in enumerate(points):
points[x] = obj_peak.peak(p[0], p[1])
scan = obj_scan.scan(peaklist=obj_peaklist.peaklist(points))
else:
scan = obj_scan.scan(profile=points)
# set metadata
scan.title = scanData['title']
scan.scanNumber = scanData['scanNumber']
scan.parentScanNumber = scanData['parentScanNumber']
scan.msLevel = scanData['msLevel']
scan.polarity = scanData['polarity']
scan.retentionTime = scanData['retentionTime']
scan.totIonCurrent = scanData['totIonCurrent']
scan.basePeakMZ = scanData['basePeakMZ']
scan.basePeakIntensity = scanData['basePeakIntensity']
scan.precursorMZ = scanData['precursorMZ']
scan.precursorIntensity = scanData['precursorIntensity']
scan.precursorCharge = scanData['precursorCharge']
return scan
def _makeScan(self, scanData, dataType):
"""Make scan object from raw data."""
# parse data as peaklist (discrete points)
if dataType == 'peaklist' or (dataType == None
and len(scanData['data']) < 3000):
buff = []
for point in scanData['data']:
buff.append(obj_peak.peak(point[0], point[1]))
scan = obj_scan.scan(peaklist=obj_peaklist.peaklist(buff))
# parse data as spectrum (continuous line)
else:
scan = obj_scan.scan(profile=scanData['data'])
# set metadata
scan.title = scanData['title']
scan.scanNumber = scanData['scanNumber']
scan.parentScanNumber = scanData['parentScanNumber']
scan.msLevel = scanData['msLevel']
scan.polarity = scanData['polarity']
scan.retentionTime = scanData['retentionTime']
scan.totIonCurrent = scanData['totIonCurrent']
scan.basePeakMZ = scanData['basePeakMZ']
scan.basePeakIntensity = scanData['basePeakIntensity']
scan.precursorMZ = scanData['precursorMZ']
scan.precursorIntensity = scanData['precursorIntensity']
scan.precursorCharge = scanData['precursorCharge']
return scan
def _makeScan(self, scanData):
"""Make scan object from raw data."""
# parse peaks
points = self._parsePoints(scanData)
if scanData['spectrumType'] == 'discrete':
for x, p in enumerate(points):
points[x] = obj_peak.peak(p[0], p[1])
scan = obj_scan.scan(peaklist=obj_peaklist.peaklist(points))
else:
scan = obj_scan.scan(profile=points)
# set metadata
scan.title = scanData['title']
scan.scanNumber = scanData['scanNumber']
scan.parentScanNumber = scanData['parentScanNumber']
scan.msLevel = scanData['msLevel']
scan.polarity = scanData['polarity']
scan.retentionTime = scanData['retentionTime']
scan.totIonCurrent = scanData['totIonCurrent']
scan.basePeakMZ = scanData['basePeakMZ']
scan.basePeakIntensity = scanData['basePeakIntensity']
scan.precursorMZ = scanData['precursorMZ']
scan.precursorIntensity = scanData['precursorIntensity']
scan.precursorCharge = scanData['precursorCharge']
return scan
def _makeScan(self, scanData, dataType):
"""Make scan object from raw data."""
# parse data as peaklist (discrete points)
if dataType == 'peaklist' or (dataType==None and len(scanData['data'])<3000):
buff = []
for point in scanData['data']:
buff.append(obj_peak.peak(point[0], point[1]))
scan = obj_scan.scan(peaklist=obj_peaklist.peaklist(buff))
# parse data as spectrum (continuous line)
else:
scan = obj_scan.scan(profile=scanData['data'])
# set metadata
scan.title = scanData['title']
scan.scanNumber = scanData['scanNumber']
scan.parentScanNumber = scanData['parentScanNumber']
scan.msLevel = scanData['msLevel']
scan.polarity = scanData['polarity']
scan.retentionTime = scanData['retentionTime']
scan.totIonCurrent = scanData['totIonCurrent']
scan.basePeakMZ = scanData['basePeakMZ']
scan.basePeakIntensity = scanData['basePeakIntensity']
scan.precursorMZ = scanData['precursorMZ']
scan.precursorIntensity = scanData['precursorIntensity']
scan.precursorCharge = scanData['precursorCharge']
return scan
def _makeScan(self, scanData, dataType):
"""Make scan object from raw data."""
# parse data as peaklist (discrete points)
if dataType == 'discrete':
buff = []
for point in scanData:
buff.append(obj_peak.peak(point[0], point[1]))
scan = obj_scan.scan(peaklist=obj_peaklist.peaklist(buff))
# parse data as spectrum (continuous line)
else:
scan = obj_scan.scan(profile=scanData)
return scan
