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d149fb1 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 | #!/bin/bash
#
# Copyright 2021 AlQuraishi Laboratory
#
# 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 all required data for AlphaFold.
#
# Usage: bash download_all_data.sh /path/to/download/directory
set -e
DOWNLOAD_DIR="$1"
ROOT_DIR="${DOWNLOAD_DIR}/mmseqs_dbs"
mkdir -p $ROOT_DIR
for f in $(ls ${DOWNLOAD_DIR}/*.tar*)
do
tar --extract --verbose --file="${f}" \
--directory=$ROOT_DIR
rm "${f}"
BASENAME="$(basename ${f%%.*})"
DB_NAME="${BASENAME}_db"
OLD_PWD=$(pwd)
cd $ROOT_DIR
mmseqs tsv2exprofiledb "${BASENAME}" "${DB_NAME}"
mmseqs createindex "${DB_NAME}" "${DOWNLOAD_DIR}/tmp/"
cd "${OLD_PWD}"
done
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