def testNumIncrementals(oneImageBidsI):
run = BidsRun()
assert run.numIncrementals() == 0
NUM_APPENDS = 20
for i in range(NUM_APPENDS):
run.appendIncremental(oneImageBidsI)
assert run.numIncrementals() == i + 1
def testAppendConflictingMetadata(oneImageBidsI):
bidsInc2 = BidsIncremental(oneImageBidsI.image,
oneImageBidsI.getImageMetadata())
bidsInc2.setMetadataField('subject', 'definitely_invalid_name')
run = BidsRun()
run.appendIncremental(oneImageBidsI)
with pytest.raises(MetadataMismatchError):
run.appendIncremental(bidsInc2)
# Append should work now with validateAppend turned off
numIncrementalsBefore = run.numIncrementals()
run.appendIncremental(bidsInc2, validateAppend=False)
assert run.numIncrementals() == (numIncrementalsBefore + 1)
def testAppendConflictingNiftiHeaders(oneImageBidsI, imageMetadata):
# Change the pixel dimensions (zooms) to make the image append-incompatible
image2 = nib.Nifti1Image(oneImageBidsI.image.dataobj,
oneImageBidsI.image.affine,
oneImageBidsI.image.header)
new_data_shape = tuple(i * 2 for i in image2.header.get_zooms())
image2.header.set_zooms(new_data_shape)
bidsInc2 = BidsIncremental(image2, imageMetadata)
run = BidsRun()
run.appendIncremental(oneImageBidsI)
with pytest.raises(MetadataMismatchError):
run.appendIncremental(bidsInc2)
# Append should work now with validateAppend turned off
numIncrementalsBefore = run.numIncrementals()
run.appendIncremental(bidsInc2, validateAppend=False)
assert run.numIncrementals() == (numIncrementalsBefore + 1)
def appendBidsRun(self, run: BidsRun) -> None:
"""
Append a BIDS Run to this archive.
Args:
run: Run to append to the archvie.
Examples:
>>> archive1 = BidsArchive('/tmp/dataset1')
>>> archive2 = BidsArchive('/tmp/dataset2')
>>> archive1.getRuns()
[1, 2]
>>> archive2.getRuns()
[1]
>>> run2 = archive1.getBidsRun(subject='01', task='test', run=2)
>>> archive2.appendBidsRun(run2)
>>> archive2.getRuns()
[1, 2]
"""
if run.numIncrementals() == 0:
return
self._appendIncremental(run.asSingleIncremental())
def testAppendEmptyIncrementals(oneImageBidsI, sampleBidsEntities):
run = BidsRun(**sampleBidsEntities)
run.appendIncremental(oneImageBidsI)
assert run.numIncrementals() == 1