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# Copyright Generate Biomedicines, Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
"""Functions to retrieve information from external databases via their API; Uniprot and RCSB are the primary databases included here.
"""
import requests
def _download_file(url, out_file):
try:
with requests.get(url, stream=True) as r:
r.raise_for_status()
with open(out_file, "wb") as f:
for chunk in r.iter_content(chunk_size=8192):
if chunk:
f.write(chunk)
return True
except requests.HTTPError:
return False
def RCSB_file_download(pdb_id, ext, local_filename):
"""Downloads a file from the RCSB files section.
Args:
pdb_id (str) : 4-letter pdb id, case-insensitive
ext (str) : Extension of file. E.g. ".pdb" or ".pdb1"
local_filename (str) : Name for downloaded file.
Returns:
None
"""
url = f"https://files.rcsb.org/view/{pdb_id.upper()}{ext}"
return _download_file(url, local_filename)
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