#if $psql_target.method == 'pgtools'
            tar -xjvf '$psql_target.infile' > /dev/null &&
            . '$__tool_directory__/prepare_psql.sh' '$psql_target.schema'
        #else
            if [ -z "\$CHAKIN_GLOBAL_CONFIG_PATH" ]; then
              echo "__default: local" > '.auth.yml' &&
              echo "local:" >> '.auth.yml' &&
              echo "    dbhost: \"\$GALAXY_CHADO_DBHOST\"" >> '.auth.yml' &&
              echo "    dbname: \"\$GALAXY_CHADO_DBNAME\"" >> '.auth.yml' &&
              echo "    dbpass: \"\$GALAXY_CHADO_DBPASS\"" >> '.auth.yml' &&
              echo "    dbuser: \"\$GALAXY_CHADO_DBUSER\"" >> '.auth.yml' &&
              echo "    dbschema: \"\$GALAXY_CHADO_DBSCHEMA\"" >> '.auth.yml' &&
              echo "    dbport: \"\$GALAXY_CHADO_DBPORT\"" >> '.auth.yml' &&

              export CHAKIN_GLOBAL_CONFIG_PATH='.auth.yml'
            ; fi
        #end if
     &&

chakin organism get_organisms

#if $organism_id:
  --organism_id '$organism_id'
#end if
#if $genus:
  --genus '$genus'
#end if
#if $species:
  --species '$species'
#end if
#if $common:
  --common '$common'
#end if
#if $abbr:
  --abbr '$abbr'
#end if
#if $comment:
  --comment '$comment'
#end if

| jq -S . > '$results'


        #if $psql_target.method == 'pgtools'
            &&
            pglite stop -d ./postgresql &&
            timeout 60 bash -c 'until pglite status -d ./postgresql | grep -F -q "no server running"; do sleep 1; done'
            ;
            ## Make sure psql is stopped even if loading script failed
            pglite stop -d ./postgresql || true
        #end if