42 lines
1.4 KiB
Bash
Executable File
42 lines
1.4 KiB
Bash
Executable File
#!/bin/bash
|
|
#
|
|
# Copyright 2021 DeepMind Technologies Limited
|
|
#
|
|
# 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.
|
|
#
|
|
# Downloads and unzips the PDB70 database for AlphaFold.
|
|
#
|
|
# Usage: bash download_pdb70.sh /path/to/download/directory
|
|
set -e
|
|
|
|
if [[ $# -eq 0 ]]; then
|
|
echo "Error: download directory must be provided as an input argument."
|
|
exit 1
|
|
fi
|
|
|
|
if ! command -v aria2c &> /dev/null ; then
|
|
echo "Error: aria2c could not be found. Please install aria2c (sudo apt install aria2)."
|
|
exit 1
|
|
fi
|
|
|
|
DOWNLOAD_DIR="$1"
|
|
ROOT_DIR="${DOWNLOAD_DIR}/pdb70"
|
|
SOURCE_URL="http://wwwuser.gwdg.de/~compbiol/data/hhsuite/databases/hhsuite_dbs/old-releases/pdb70_from_mmcif_200401.tar.gz"
|
|
BASENAME=$(basename "${SOURCE_URL}")
|
|
|
|
mkdir --parents "${ROOT_DIR}"
|
|
aria2c "${SOURCE_URL}" --dir="${ROOT_DIR}" --check-certificate=false
|
|
tar --extract --verbose --file="${ROOT_DIR}/${BASENAME}" \
|
|
--directory="${ROOT_DIR}"
|
|
rm "${ROOT_DIR}/${BASENAME}"
|