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36 changes: 17 additions & 19 deletions malariagen_data/plasmodium.py
Original file line number Diff line number Diff line change
Expand Up @@ -274,29 +274,27 @@ def genome_sequence(self, region="*", inline_array=True, chunks="native"):

"""
genome = self.open_genome()
if type(region) not in [tuple, list] and region != "*" and region is not None:
d = self._subset_genome_sequence_region(

if region == "*" or region is None:
regions = self.contigs
elif isinstance(region, (list, tuple)):
regions = list(region)
else:
regions = [region]

sequences = [
self._subset_genome_sequence_region(
genome=genome,
region=region,
region=r,
inline_array=inline_array,
chunks=chunks,
)
else:
region = tuple(region)
if region == tuple("*"):
region = self.contigs
d = da.concatenate(
[
self._subset_genome_sequence_region(
genome=genome,
region=r,
inline_array=inline_array,
chunks=chunks,
)
for r in region
]
)
return d
for r in regions
]

if len(sequences) == 1:
return sequences[0]
return da.concatenate(sequences)

def genome_features(self, attributes=("ID", "Parent", "Name")):
"""Access genome feature annotations.
Expand Down