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Commit 71fabe1e authored by Gustaf Ahdritz's avatar Gustaf Ahdritz
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Fix mmseqs script bug

parent f9e04aa0
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Showing with 4 additions and 2 deletions
scripts/prep_mmseqs_dbs.sh
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...@@ -20,16 +20,18 @@ ...@@ -20,16 +20,18 @@
set -e set -e
DOWNLOAD_DIR="$1" DOWNLOAD_DIR="$1"
ROOT_DIR="${DOWNLOAD_DIR}/mmseqs_dbs"
mkdir -p $ROOT_DIR
for f in $(ls ${DOWNLOAD_DIR}/*.tar.gz) for f in $(ls ${DOWNLOAD_DIR}/*.tar.gz)
do do
tar --extract --verbose --file="${f}" \ tar --extract --verbose --file="${f}" \
--directory="${DOWNLOAD_DIR}/mmseqs_dbs" --directory=$ROOT_DIR
rm "${f}" rm "${f}"
BASENAME="$(basename {f%%.*})" BASENAME="$(basename {f%%.*})"
DB_NAME="${BASENAME}_db" DB_NAME="${BASENAME}_db"
OLD_PWD=$(pwd) OLD_PWD=$(pwd)
cd "${DOWNLOAD_DIR}/mmseqs_dbs" cd $ROOT_DIR
mmseqs tsv2exprofiledb "${BASENAME}" "${DB_NAME}" mmseqs tsv2exprofiledb "${BASENAME}" "${DB_NAME}"
mmseqs createindex "${DB_NAME}" "${DOWNLOAD_DIR}/tmp/" mmseqs createindex "${DB_NAME}" "${DOWNLOAD_DIR}/tmp/"
cd "${OLD_PWD}" cd "${OLD_PWD}"
......
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