def test_parses_relabeled_tiff(self):
name = 'mCherry-s04t045.tif'
res = utils.parse_image_name(name)
exp = {
'multi_tile': 0,
'slice': 0,
'tile': 4,
'channel': 2,
'timepoint': 45,
'channel_name': 'mCherry',
'key': '4-mcherry',
'suffix': '.tif',
}
self.assertEqual(res, exp)
def test_parses_multitile_experiment(self):
name = 'Alexa Fluor 488-s011t045m3.tif'
res = utils.parse_image_name(name)
exp = {
'slice': 0,
'tile': 11,
'channel': 1,
'timepoint': 45,
'channel_name': 'Alexa Fluor 488',
'multi_tile': 3,
'key': '11-alexa_fluor_488',
'suffix': '.tif',
}
self.assertEqual(res, exp)
def test_parses_relabeled_warp_file(self):
name = 'TL Brightfield-s04t045InverseWarp.nii.gz'
res = utils.parse_image_name(name)
exp = {
'multi_tile': 0,
'slice': 0,
'tile': 4,
'channel': 1,
'timepoint': 45,
'channel_name': 'TL Brightfield',
'key': '4-tl_brightfield',
'suffix': 'InverseWarp.nii.gz',
}
self.assertEqual(res, exp)
def test_parses_colony_mask_name(self):
name = 'colony_mask-s11t021.npz'
res = utils.parse_image_name(name)
exp = {
'multi_tile': 0,
'slice': 0,
'tile': 11,
'channel': 1,
'timepoint': 21,
'channel_name': 'colony_mask',
'key': '11-colony_mask',
'suffix': '.npz',
}
self.assertEqual(res, exp)
def test_parses_older_experiment(self):
name = 'Experiment-07-Image Export-01_s13t57TL Brightfield_1_ORG.tif'
res = utils.parse_image_name(name)
exp = {
'multi_tile': 0,
'slice': 0,
'tile': 13,
'channel': 1,
'timepoint': 57,
'channel_name': 'TL Brightfield',
'key': '13-tl_brightfield',
'suffix': '.tif',
'prefix': 'Experiment-07-Image Export-01'
}
self.assertEqual(res, exp)
def test_parses_ants_warp(self):
name = 'Experiment-07-Image Export-01_s32t53TL Brightfield_1_ORGWarp.nii.gz'
res = utils.parse_image_name(name)
exp = {
'multi_tile': 0,
'slice': 0,
'tile': 32,
'channel': 1,
'timepoint': 53,
'channel_name': 'TL Brightfield',
'key': '32-tl_brightfield',
'prefix': 'Experiment-07-Image Export-01',
'suffix': 'Warp.nii.gz',
}
self.assertEqual(res, exp)
def test_parses_newer_experiment(self):
name = '2016-08-29-Interleave-107_s15c3_ORG.tif'
res = utils.parse_image_name(name)
exp = {
'multi_tile': 0,
'slice': 0,
'tile': 15,
'channel': 3,
'timepoint': 107,
'channel_name': 'EGFP',
'key': '15-egfp',
'prefix': '2016-08-29-Interleave',
'suffix': '.tif',
}
self.assertEqual(res, exp)
def test_parses_yet_another_new_experiment(self):
name = '2017-01-31-6hr-Image Export-01_s28t60_EGFP_ORG.tif'
res = utils.parse_image_name(name)
exp = {
'multi_tile': 0,
'slice': 0,
'tile': 28,
'channel': 3,
'timepoint': 60,
'channel_name': 'EGFP',
'key': '28-egfp',
'prefix': '2017-01-31-6hr-Image Export-01',
'suffix': '.tif',
}
self.assertEqual(res, exp)
def test_parses_another_new_experiment(self):
name = '2016-10-28-6hr-Image Export-01_s33t68_ORG.tif'
res = utils.parse_image_name(name)
exp = {
'multi_tile': 0,
'slice': 0,
'tile': 33,
'channel': 1,
'timepoint': 68,
'channel_name': 'TL Brightfield',
'key': '33-tl_brightfield',
'prefix': '2016-10-28-6hr-Image Export-01',
'suffix': '.tif',
}
self.assertEqual(res, exp)