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sminot/read_fasta_from_s3.py

Created May 25, 2018 22:16
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Read FASTA from S3 with boto3
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read_fasta_from_s3.py
def read_fasta_from_s3(bucket_name, key_name, sep="\t"):
s3 = boto3.client('s3')
retr = s3.get_object(Bucket=bucket_name, Key=key_name)
for header, seq in SimpleFastaParser(io.StringIO(retr['Body'].read().decode('utf-8'))):
yield header, seq
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