def _loadWithPlugin(self, UID, pluginName):
dicomWidget = slicer.modules.dicom.widgetRepresentation().self()
dicomPluginCheckbox = dicomWidget.detailsPopup.pluginSelector.checkBoxByPlugin
dicomPluginStates = {(key,value.checked) for key,value in dicomPluginCheckbox.iteritems()}
for cb in dicomPluginCheckbox.itervalues():
cb.checked=False
dicomPluginCheckbox[pluginName].checked = True
success=DICOMUtils.loadSeriesByUID([UID])
for key,value in dicomPluginStates:
dicomPluginCheckbox[key].checked=value
def getImageFromDICOMInformation(self, dcmInfo):
loadedNodeIDs = []
with DICOMUtils.TemporaryDICOMDatabase() as database:
DICOMUtils.importDicom(os.path.join(self.path, 'DICOM'), database)
series = SlicerDICOMDatabase().geSeriestMatchingDescriptionAndDateTime(dcmInfo['SeriesDescription'], dcmInfo['AcquisitionDateTime'])
loadedNodeIDs.extend(DICOMUtils.loadSeriesByUID([series]))
for nodeID in loadedNodeIDs[::-1]:
volumeNode = slicer.util.getNode(nodeID)
if re.search('.*' + dcmInfo['SeriesDescription'] + '.*', volumeNode.GetName()):
return volumeNode
raise RuntimeError('Unable to find image in DICOM: ' + self.path)
def _loadTestData_WithPETDICOMExtension(self):
""" load SUV normalized PET scan from DICOM fileassuming Slicer-PETDICOM extension is installed and enabled
"""
from DICOMLib import DICOMUtils
import urllib
data = {
'PETVolume': {
'UID': '1.3.6.1.4.1.14519.5.2.1.2744.7002.886851941687931416391879144903',
'url': 'http://slicer.kitware.com/midas3/download/item/257234/QIN-HEADNECK-01-0139-PET.zip',
'zipFile': 'QIN-HEADNECK-01-0139-PET.zip',
'SUVNormalizationFactor': 0.00040166400000000007
}
}
destinationDirectory = self.tempDataDir
for key, value in data.iteritems(): # download data if necessary
UID = value['UID']
if not len(slicer.dicomDatabase.filesForSeries(UID)):
url = value['url']
zipFile = value['zipFile']
filePath = os.path.join(destinationDirectory, zipFile)
if not os.path.exists(os.path.dirname(filePath)):
os.makedirs(os.path.dirname(filePath))
logging.debug('Saving download %s to %s ' % (url, filePath))
if not os.path.exists(filePath) or os.stat(filePath).st_size == 0:
slicer.util.delayDisplay('Requesting download of %s...\n' % url, 1000)
urllib.urlretrieve(url, filePath)
if os.path.exists(filePath) and os.path.splitext(filePath)[1]=='.zip':
success = slicer.app.applicationLogic().Unzip(filePath, destinationDirectory)
if not success:
logging.error("Archive %s was NOT unzipped successfully." % filePath)
indexer = ctk.ctkDICOMIndexer()
indexer.addDirectory(slicer.dicomDatabase, destinationDirectory, None)
indexer.waitForImportFinished()
# load dataset
success=DICOMUtils.loadSeriesByUID([data['PETVolume']['UID']])
if not success:
logging.error("Unable to load dicom data %s\n." % data['PETVolume']['UID'])
return slicer.mrmlScene.GetFirstNodeByClass('vtkMRMLScalarVolumeNode')
