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Add missing MPI runner to slice search

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milot-mirdita committed Oct 10, 2018
1 parent d1131e1 commit d95c0d6959b0eae8da5a08771f2883b30fc874aa
Showing with 2 additions and 3 deletions.
  1. +2 −3 data/searchslicedtargetprofile.sh
@@ -86,7 +86,7 @@ while [ "${STEP}" -lt "${MAX_STEPS}" ] && [ "${NUM_PROFILES}" -gt 0 ]; do
if notExists "${TMP_PATH}/pref.done"; then
# shellcheck disable=SC2086
"$MMSEQS" prefilter "${PROFILEDB}" "${INPUT}" "${TMP_PATH}/pref" \
${RUNNER} "$MMSEQS" prefilter "${PROFILEDB}" "${INPUT}" "${TMP_PATH}/pref" \
--max-seqs "${SEARCH_LIM}" --offset-result "${OFFSET}" ${PREFILTER_PAR} \
|| fail "prefilter died"
touch "${TMP_PATH}/pref.done"
@@ -112,7 +112,7 @@ while [ "${STEP}" -lt "${MAX_STEPS}" ] && [ "${NUM_PROFILES}" -gt 0 ]; do
if notExists "${TMP_PATH}/aln.done"; then
# shellcheck disable=SC2086
"$MMSEQS" align "${PROFILEDB}" "${INPUT}" "${TMP_PATH}/pref" "${TMP_PATH}/aln" ${ALIGNMENT_PAR} \
${RUNNER} "$MMSEQS" align "${PROFILEDB}" "${INPUT}" "${TMP_PATH}/pref" "${TMP_PATH}/aln" ${ALIGNMENT_PAR} \
|| fail "align died"
rm -f "${TMP_PATH}/pref" "${TMP_PATH}/pref.index"
touch "${TMP_PATH}/aln.done"
@@ -164,7 +164,6 @@ mv -f "${TMP_PATH}/aln_merged.index" "${RESULT}.index"
if [ -n "$REMOVE_TMP" ]; then
echo "Remove temporary files"
while [ "$STEP" -lt "$MAX_STEPS" ]; do
if [ -f "${TMP_PATH}/aln_${STEP}.checkpoint" ]; then
rm -f "${TMP_PATH}/aln_${STEP}.checkpoint"

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