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NSCLC-Radiomics-NIFTI

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NSCLC-Radiomics-NIFTI / convert.log

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	(python39) farrell@helios:/vol/biodata/data$ python convert.py
	3%\|████▉ \| 13/422 [01:11<37:25, 5.49s/it]Slice increment not consistent through all slices
	---------------------------------------------------------
	[-250.112 -250.112 -61.9 ] [ 0. 0. -6.]
	[-250.112 -250.112 -58.9 ] [ 0. 0. -3.]
	Instance Number: 70
	---------------------------------------------------------
	Traceback (most recent call last):
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dir.py", line 85, in convert_directory
	convert_dicom.dicom_array_to_nifti(dicom_input, nifti_file, reorient)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dicom.py", line 117, in dicom_array_to_nifti
	results = convert_generic.dicom_to_nifti(dicom_list, output_file)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_generic.py", line 132, in dicom_to_nifti
	common.validate_slice_increment(dicom_input)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/common.py", line 873, in validate_slice_increment
	raise ConversionValidationError('SLICE_INCREMENT_INCONSISTENT')
	dicom2nifti.exceptions.ConversionValidationError: SLICE_INCREMENT_INCONSISTENT
	5%\|███████▌ \| 20/422 [01:43<34:03, 5.08s/it]Slice increment not consistent through all slices
	---------------------------------------------------------
	[-250.112 -250.112 67.1 ] [ 0. 0. -3.]
	[-250.112 -250.112 73.1 ] [ 0. 0. -6.]
	Instance Number: 81
	---------------------------------------------------------
	Traceback (most recent call last):
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dir.py", line 85, in convert_directory
	convert_dicom.dicom_array_to_nifti(dicom_input, nifti_file, reorient)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dicom.py", line 117, in dicom_array_to_nifti
	results = convert_generic.dicom_to_nifti(dicom_list, output_file)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_generic.py", line 132, in dicom_to_nifti
	common.validate_slice_increment(dicom_input)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/common.py", line 873, in validate_slice_increment
	raise ConversionValidationError('SLICE_INCREMENT_INCONSISTENT')
	dicom2nifti.exceptions.ConversionValidationError: SLICE_INCREMENT_INCONSISTENT
	20%\|███████████████████████████████▋ \| 84/422 [07:47<34:41, 6.16s/it]Slice increment not consistent through all slices
	---------------------------------------------------------
	[-250.112 -250.112 -700.9 ] [ 0. 0. -3.]
	[-250.112 -250.112 -694.9 ] [ 0. 0. -6.]
	Instance Number: 100
	---------------------------------------------------------
	Traceback (most recent call last):
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dir.py", line 85, in convert_directory
	convert_dicom.dicom_array_to_nifti(dicom_input, nifti_file, reorient)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dicom.py", line 117, in dicom_array_to_nifti
	results = convert_generic.dicom_to_nifti(dicom_list, output_file)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_generic.py", line 132, in dicom_to_nifti
	common.validate_slice_increment(dicom_input)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/common.py", line 873, in validate_slice_increment
	raise ConversionValidationError('SLICE_INCREMENT_INCONSISTENT')
	dicom2nifti.exceptions.ConversionValidationError: SLICE_INCREMENT_INCONSISTENT
	22%\|███████████████████████████████████▍ \| 94/422 [08:43<31:14, 5.71s/it]Slice increment not consistent through all slices
	---------------------------------------------------------
	[-250.112 -250.112 -331.6 ] [ 0. 0. -3.]
	[-250.112 -250.112 -329.6 ] [ 0. 0. -2.]
	Instance Number: 100
	---------------------------------------------------------
	Traceback (most recent call last):
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dir.py", line 85, in convert_directory
	convert_dicom.dicom_array_to_nifti(dicom_input, nifti_file, reorient)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dicom.py", line 117, in dicom_array_to_nifti
	results = convert_generic.dicom_to_nifti(dicom_list, output_file)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_generic.py", line 132, in dicom_to_nifti
	common.validate_slice_increment(dicom_input)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/common.py", line 873, in validate_slice_increment
	raise ConversionValidationError('SLICE_INCREMENT_INCONSISTENT')
	dicom2nifti.exceptions.ConversionValidationError: SLICE_INCREMENT_INCONSISTENT
	46%\|████████████████████████████████████████████████████████████████████████▎ \| 193/422 [18:04<21:14, 5.56s/it]Slice increment not consistent through all slices
	---------------------------------------------------------
	[-250.112 -250.112 -532.5 ] [ 0. 0. -3.]
	[-250.112 -250.112 -526.5 ] [ 0. 0. -6.]
	Instance Number: 112
	---------------------------------------------------------
	Traceback (most recent call last):
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dir.py", line 85, in convert_directory
	convert_dicom.dicom_array_to_nifti(dicom_input, nifti_file, reorient)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_dicom.py", line 117, in dicom_array_to_nifti
	results = convert_generic.dicom_to_nifti(dicom_list, output_file)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/convert_generic.py", line 132, in dicom_to_nifti
	common.validate_slice_increment(dicom_input)
	File "/vol/medic01/users/bh1511/_venv/python39/lib/python3.9/site-packages/dicom2nifti/common.py", line 873, in validate_slice_increment
	raise ConversionValidationError('SLICE_INCREMENT_INCONSISTENT')
	dicom2nifti.exceptions.ConversionValidationError: SLICE_INCREMENT_INCONSISTENT
	58%\|███████████████████████████████████████████████████████████████████████████████████████████▋ \| 245/422 [22:41<17:21, 5.88s/it]Removing duplicate slice from series
	100%\|██████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████\| 422/422 [39:52<00:00, 5.67s/it]
	(python39) farrell@helios:/vol/biodata/data$