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farrell236
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NSCLC-Radiomics-NIFTI

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medical
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Create convert.log

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