#!/usr/bin/env python3
"""Test zip archive
"""
import unittest
import os.path
import numpy as np
import tempfile
import argparse
# from .context import imagedata
import src.imagedata.cmdline as cmdline
import src.imagedata.formats as formats
from src.imagedata.series import Series
[docs]
class TestDicomZipRead(unittest.TestCase):
[docs]
def setUp(self):
parser = argparse.ArgumentParser()
cmdline.add_argparse_options(parser)
self.opts = parser.parse_args([])
if len(self.opts.output_format) < 1:
self.opts.output_format = ['dicom']
# @unittest.skip("skipping test_read_single_file")
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def test_read_single_file(self):
si1 = Series(
os.path.join('data', 'dicom', 'time.zip?time/time00/Image_00020.dcm'),
'none',
self.opts)
self.assertEqual('dicom', si1.input_format)
self.assertEqual(si1.dtype, np.uint16)
self.assertEqual(si1.shape, (192, 152))
# @unittest.skip("skipping test_read_single_file_wildcard")
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def test_read_single_file_wildcard(self):
si1 = Series(
os.path.join('data', 'dicom', 'time.zip?*00/Image_00020.dcm'),
'none',
self.opts)
self.assertEqual('dicom', si1.input_format)
self.assertEqual(si1.dtype, np.uint16)
self.assertEqual(si1.shape, (192, 152))
# @unittest.skip("skipping test_read_two_files")
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def test_read_two_files(self):
si1 = Series(
os.path.join('data', 'dicom', 'time.zip?*00/Image_0002[01].dcm'),
'none',
self.opts)
self.assertEqual('dicom', si1.input_format)
self.assertEqual(si1.dtype, np.uint16)
self.assertEqual(si1.shape, (2, 192, 152))
# @unittest.skip("skipping test_read_two_files2")
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def test_read_two_files2(self):
si1 = Series(
os.path.join('data', 'dicom', 'time.zip?*0[01]/Image_0002[01].dcm'),
formats.INPUT_ORDER_TIME,
self.opts)
self.assertEqual('dicom', si1.input_format)
self.assertEqual(si1.dtype, np.uint16)
self.assertEqual(si1.shape, (2, 2, 192, 152))
# @unittest.skip("skipping test_read_single_directory")
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def test_read_single_directory(self):
si1 = Series(
os.path.join('data', 'dicom', 'time.zip?time/time00'),
'none',
self.opts)
self.assertEqual('dicom', si1.input_format)
self.assertEqual(si1.dtype, np.uint16)
self.assertEqual(si1.shape, (3, 192, 152))
# @unittest.skip("skipping test_read_all_files")
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def test_read_all_files(self):
si1 = Series(
os.path.join('data', 'dicom', 'time.zip'),
formats.INPUT_ORDER_TIME,
self.opts)
self.assertEqual('dicom', si1.input_format)
self.assertEqual(si1.dtype, np.uint16)
self.assertEqual(si1.shape, (3, 3, 192, 152))
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class TestDicomZipWrite(unittest.TestCase):
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def setUp(self):
parser = argparse.ArgumentParser()
cmdline.add_argparse_options(parser)
self.opts = parser.parse_args([])
if len(self.opts.output_format) < 1:
self.opts.output_format = ['dicom']
# @unittest.skip("skipping test_write_single_file")
[docs]
def test_write_single_file(self):
si1 = Series(os.path.join('data', 'dicom', 'time.zip?time/time00/Image_00020.dcm'))
self.assertEqual('dicom', si1.input_format)
with tempfile.TemporaryDirectory() as d:
si1.write(os.path.join(d, 'dicom.zip'), formats=['dicom'])
si2 = Series(os.path.join(d, 'dicom.zip?Image_00000.dcm'))
self.assertEqual('dicom', si2.input_format)
self.assertEqual(si1.dtype, si2.dtype)
self.assertEqual(si2.dtype, np.uint16)
self.assertEqual(si1.shape, si2.shape)
self.assertEqual(si1.studyInstanceUID, si2.studyInstanceUID)
# obj.assertEqual(si1.seriesInstanceUID, si2.seriesInstanceUID)
# @unittest.skip("skipping test_write_all_files")
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def test_write_all_files(self):
si1 = Series(
os.path.join('data', 'dicom', 'time.zip'),
formats.INPUT_ORDER_TIME,
self.opts)
self.assertEqual('dicom', si1.input_format)
with tempfile.TemporaryDirectory() as d:
si1.write(os.path.join(d, 'dicom.zip'), formats=['dicom'])
si2 = Series(os.path.join(d, 'dicom.zip'),
formats.INPUT_ORDER_TIME,
self.opts)
self.assertEqual('dicom', si2.input_format)
self.assertEqual(si1.dtype, si2.dtype)
self.assertEqual(si1.shape, si2.shape)
if __name__ == '__main__':
unittest.main()