diff --git a/scripts/index_data.sh b/scripts/index_data.sh
index 4368cd6..7d03ec3 100644
--- a/scripts/index_data.sh
+++ b/scripts/index_data.sh
@@ -60,9 +60,9 @@ then
 
     if [ -e ${CONFIG_DIR}/run_index.${PROTEIN_NAME}.sh ]
     then
-        ${CONFIG_DIR}/run_index.${PROTEIN_NAME}.sh ${FILELST} ${FILEN}.geom ${FILEN}.cell ${FILEN}.stream > ${FILEN}.out 2>${FILEN}.err
+        ${CONFIG_DIR}/run_index.${PROTEIN_NAME}.sh ${FILELST} ${FILEN}.geom ${FILEN}.cell ${FILEN}.stream ${FILEN}-mill > ${FILEN}.out 2>${FILEN}.err
     else
-        ${CONFIG_DIR}/run_index.sh                 ${FILELST} ${FILEN}.geom ${FILEN}.cell ${FILEN}.stream > ${FILEN}.out 2>${FILEN}.err
+        ${CONFIG_DIR}/run_index.sh                 ${FILELST} ${FILEN}.geom ${FILEN}.cell ${FILEN}.stream ${FILEN}-mill > ${FILEN}.out 2>${FILEN}.err
     fi
 
     module purge
@@ -110,9 +110,9 @@ then
 
                 if [ -e ${CONFIG_DIR}/run_index.${PROTEIN_NAME}.sh ]
                 then
-                    ${CONFIG_DIR}/run_index.${PROTEIN_NAME}.sh ${FILELST} ${FILEN}.geom ${FILEN}.cell_alternative ${FILEN}.stream_alternative > ${FILEN}.out_alternative 2>${FILEN}.err_alternative
+                    ${CONFIG_DIR}/run_index.${PROTEIN_NAME}.sh ${FILELST} ${FILEN}.geom ${FILEN}.cell_alternative ${FILEN}.stream_alternative ${FILEN}-mill_alternative > ${FILEN}.out_alternative 2>${FILEN}.err_alternative
                 else
-                    ${CONFIG_DIR}/run_index.sh ${FILELST} ${FILEN}.geom ${FILEN}.cell_alternative ${FILEN}.stream_alternative > ${FILEN}.out_alternative 2>${FILEN}.err_alternative
+                    ${CONFIG_DIR}/run_index.sh                 ${FILELST} ${FILEN}.geom ${FILEN}.cell_alternative ${FILEN}.stream_alternative ${FILEN}-mill_alternative > ${FILEN}.out_alternative 2>${FILEN}.err_alternative
                 fi
                 rm -rf ${FILEN}.cell_alternative