Add verbosity to more module calls

steineggerlab · Jan 7, 2025 · 0125d58 · 0125d58
1 parent 4ebaa30
commit 0125d58
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Showing 3 changed files with 6 additions and 5 deletions.
diff --git a/data/multimercluster.sh b/data/multimercluster.sh
@@ -125,7 +125,7 @@ BASEIN=$(basename "${INPUT}")
 # Shift _h, _h.dbtype
 if notExists "${TMP_PATH}/multimer_db_h.dbtype"; then
     # shellcheck disable=SC2086
-    "$MMSEQS" lndb "${INPUT}" "${TMP_PATH}/${BASEIN}tmp" ${VERBOSITY} \
+    "$MMSEQS" lndb "${INPUT}" "${TMP_PATH}/${BASEIN}tmp" ${VERBOSITY_PAR} \
         || fail "lndb died"
 
     # shellcheck disable=SC2086

diff --git a/data/structdatabases.sh b/data/structdatabases.sh
@@ -212,10 +212,10 @@ case "${INPUT_TYPE}" in
         for SUFFIX in "" "_ss" "_h" "_ca"; do
             if [ -e "${IN}_seq${SUFFIX}.dbtype" ]; then
                 # shellcheck disable=SC2086
-                "${MMSEQS}" mvdb "${IN}_seq${SUFFIX}" "${OUTDB}_seq${SUFFIX}" || fail "mv died"
+                "${MMSEQS}" mvdb "${IN}_seq${SUFFIX}" "${OUTDB}_seq${SUFFIX}" ${VERB_PAR} || fail "mv died"
             fi
             # shellcheck disable=SC2086
-            "${MMSEQS}" mvdb "${IN}${SUFFIX}" "${OUTDB}${SUFFIX}" || fail "mv died"
+            "${MMSEQS}" mvdb "${IN}${SUFFIX}" "${OUTDB}${SUFFIX}" ${VERB_PAR} || fail "mv died"
         done
 
         if [ -e "${IN}_clu.dbtype" ]; then
@@ -229,7 +229,7 @@ case "${INPUT_TYPE}" in
             done
 
             # shellcheck disable=SC2086
-            "${MMSEQS}" mvdb "${IN}_clu" "${OUTDB}_clu" || fail "mv died"
+            "${MMSEQS}" mvdb "${IN}_clu" "${OUTDB}_clu" ${VERB_PAR} || fail "mv died"
         fi
     ;;
 esac

diff --git a/data/structureiterativesearch.sh b/data/structureiterativesearch.sh
@@ -45,7 +45,8 @@ while [ "$STEP" -lt "$NUM_IT" ]; do
             # shellcheck disable=SC2086
             "$MMSEQS" subtractdbs "$TMP_PATH/pref_tmp_${STEP}" "$TMP_PATH/aln_${STEPONE}" "$TMP_PATH/pref_${STEP}" $SUBSTRACT_PAR \
                 || fail "Substract died"
-            "$MMSEQS" rmdb "$TMP_PATH/pref_tmp_${STEP}"
+            # shellcheck disable=SC2086
+            "$MMSEQS" rmdb "$TMP_PATH/pref_tmp_${STEP}" ${VERBOSITY}
         fi
         touch "$TMP_PATH/pref_${STEP}.done"
     fi