# fix single line json output of esummary which makes
# subsequent calls fail (grep -v will just remove everything)
diff -ruN c++/src/app/blast/get_species_taxids.sh c++/src/app/blast/get_species_taxids.sh
--- c++/src/app/blast/get_species_taxids.sh	2021-05-19 15:54:06.000000000 +0200
+++ c++/src/app/blast/get_species_taxids.sh	2021-07-13 10:23:40.000000000 +0200
@@ -135,7 +135,7 @@
         fi
     fi

-    esummary -mode json < $OUTPUT > $TMP
+    esummary -mode json < $OUTPUT | sed 's/{/{\n/g; s/,/,\n/g; s/}/}\n/g' > $TMP

     if [ $? -ne 0 ]; then
         error_exit "esummary error" $?