pass genomes that only have Info: messages from table2asn

Author: dpark01

pipes/WDL/tasks/tasks_ncbi.wdl

@@ -1179,6 +1179,10 @@ task table2asn {
       ~{'-src-file "' + source_modifier_table + '"'} \
       ~{'-y "' + comment + '"'} \
       -a s -V vb
+
+    set +e
+    grep -vi '^Info:' "~{out_basename}.val" > "~{out_basename}.val.no_info"
+    # Question: should "^Warning: valid" also be passed??
   >>>
 
   output {
@@ -1187,7 +1191,7 @@ task table2asn {
     File          genbank_validation_file  = "~{out_basename}.val"
     Array[String] table2asn_errors         = read_lines("~{out_basename}.val")
     String        table2asn_version        = read_string("TABLE2ASN_VERSION")
-    Boolean       table2asn_passing        = length(read_lines("~{out_basename}.val")) == 0
+    Boolean       table2asn_passing        = length(read_lines("~{out_basename}.val.no_info")) == 0
   }
 
   runtime {