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#!/usr/bin/env python
# Copyright 2002 Brad Chapman. All rights reserved.
#
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Test timing of loading records into a BioSQL database."""
import time
# set up the connection
from Bio import GenBank
from BioSQL import BioSeqDatabase
server = BioSeqDatabase.open_database(
host="192.168.0.192", user="root", passwd="", db="pythonloadtest"
)
# remove the database if it already exists
db_name = "testload"
try:
server[db_name]
server.remove_database(db_name)
except KeyError:
pass
db = server.new_database(db_name)
input_file = "/home/hack/install/biopython/Tests/GenBank/cor6_6.gb"
handle = open(input_file)
parser = GenBank.FeatureParser()
iterator = GenBank.Iterator(handle, parser)
# -- do the timing part
start_time = time.time()
num_records = db.load(iterator)
end_time = time.time()
elapsed_time = end_time - start_time
print("Loading")
print(
"\tDid %s records in %s seconds for\n\t%f records per second"
% (num_records, elapsed_time, float(num_records) / float(elapsed_time))
)
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