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Corrected relative gunzip paths in download scripts #459

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Corrected relative gunzip paths in download scripts #459

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6cc5512
Corrected relative gunzip small_bfd path
Jondeen May 6, 2022
9d222fc
Corrected relative gunzip paths
Jondeen May 6, 2022
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2 changes: 1 addition & 1 deletion scripts/download_mgnify.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -39,5 +39,5 @@ BASENAME=$(basename "${SOURCE_URL}")
mkdir --parents "${ROOT_DIR}"
aria2c "${SOURCE_URL}" --dir="${ROOT_DIR}"
pushd "${ROOT_DIR}"
gunzip "${ROOT_DIR}/${BASENAME}"
gunzip "${BASENAME}"
popd
2 changes: 1 addition & 1 deletion scripts/download_small_bfd.sh
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Expand Up @@ -37,5 +37,5 @@ BASENAME=$(basename "${SOURCE_URL}")
mkdir --parents "${ROOT_DIR}"
aria2c "${SOURCE_URL}" --dir="${ROOT_DIR}"
pushd "${ROOT_DIR}"
gunzip "${ROOT_DIR}/${BASENAME}"
gunzip "${BASENAME}"
popd
10 changes: 5 additions & 5 deletions scripts/download_uniprot.sh
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Expand Up @@ -45,11 +45,11 @@ mkdir --parents "${ROOT_DIR}"
aria2c "${TREMBL_SOURCE_URL}" --dir="${ROOT_DIR}"
aria2c "${SPROT_SOURCE_URL}" --dir="${ROOT_DIR}"
pushd "${ROOT_DIR}"
gunzip "${ROOT_DIR}/${TREMBL_BASENAME}"
gunzip "${ROOT_DIR}/${SPROT_BASENAME}"
gunzip "${TREMBL_BASENAME}"
gunzip "${SPROT_BASENAME}"

# Concatenate TrEMBL and SwissProt, rename to uniprot and clean up.
cat "${ROOT_DIR}/${SPROT_UNZIPPED_BASENAME}" >> "${ROOT_DIR}/${TREMBL_UNZIPPED_BASENAME}"
mv "${ROOT_DIR}/${TREMBL_UNZIPPED_BASENAME}" "${ROOT_DIR}/uniprot.fasta"
rm "${ROOT_DIR}/${SPROT_UNZIPPED_BASENAME}"
cat "${SPROT_UNZIPPED_BASENAME}" >> "${TREMBL_UNZIPPED_BASENAME}"
mv "${TREMBL_UNZIPPED_BASENAME}" "uniprot.fasta"
rm "${SPROT_UNZIPPED_BASENAME}"
popd
2 changes: 1 addition & 1 deletion scripts/download_uniref90.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -37,5 +37,5 @@ BASENAME=$(basename "${SOURCE_URL}")
mkdir --parents "${ROOT_DIR}"
aria2c "${SOURCE_URL}" --dir="${ROOT_DIR}"
pushd "${ROOT_DIR}"
gunzip "${ROOT_DIR}/${BASENAME}"
gunzip "${BASENAME}"
popd