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Update CSV Generators #246

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Apr 26, 2017
Merged

Update CSV Generators #246

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9 changes: 5 additions & 4 deletions bin/batchExamples/GenerateInputCSV_Datasethierarchy.py
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Original file line number Diff line number Diff line change
Expand Up @@ -7,9 +7,9 @@


def main():
DATA_ROOT_PATH = r''
inputDirectory = DATA_ROOT_PATH + r''
outputFile = DATA_ROOT_PATH + r'/FileList.csv'
DATA_ROOT_PATH = r'R:\TEMP'
inputDirectory = DATA_ROOT_PATH + r'\TEST'
outputFile = DATA_ROOT_PATH + r'/FileListNEW.csv'
filetype = '.nrrd'

keywordSettings = {}
Expand All @@ -28,6 +28,7 @@ def main():
try:
with open(outputFile, 'wb') as outFile:
cw = csv.writer(outFile, lineterminator='\n')
cw.writerow(['Patient', 'StudyDate', 'Image', 'Mask'])

for patientIndex, patientDirectory in enumerate(datasetHierarchyDict):
patientID = os.path.basename(patientDirectory)
Expand All @@ -43,7 +44,7 @@ def main():

if (imageFilepath is not None) and (maskFilepath is not None):
# ReaderName is not extracted using DatasetHierarchyReader, set it to 'N/A'
cw.writerow([patientID, studyDate, 'N/A', imageFilepath, maskFilepath])
cw.writerow([patientID, studyDate, imageFilepath, maskFilepath])

except Exception as exc:
print(exc)
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1 change: 1 addition & 0 deletions bin/batchExamples/GenerateInputCSV_Filename.py
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Expand Up @@ -45,6 +45,7 @@ def main():
try:
with open(outputFile, 'wb') as outFile:
cw = csv.writer(outFile, lineterminator='\n')
cw.writerow(['Patient', 'Sequence', 'Reader', 'Image', 'Mask'])

for patient, Studies in sorted(six.iteritems(datasetHierarchyDict), key=lambda t: t[0]):
for Study, im_fileList in sorted(six.iteritems(Studies['reconstructions']), key=lambda t: t[0]):
Expand Down