9e3ba7e02f241e806c6a656329ea8aee730d000b
hiram
  Mon Jun 28 15:09:07 2021 -0700
indicate error when dynamic blat does not respond refs #27556

diff --git src/hg/makeDb/doc/asmHubs/testDynBlat.sh src/hg/makeDb/doc/asmHubs/testDynBlat.sh
index c68c732..90b48a8 100755
--- src/hg/makeDb/doc/asmHubs/testDynBlat.sh
+++ src/hg/makeDb/doc/asmHubs/testDynBlat.sh
@@ -1,30 +1,35 @@
 #!/bin/bash
 
 set -beEu -o pipefail
 
 if [ $# -ne 1 ]; then
   printf "usage: testDynBlat.sh asmId > result.json\n" 1>&2
   exit 255
 fi
 
 export blatHost="dynablat-01"
 export blatPort="4040"
 
 export asmId=$1
 export gcX=${asmId:0:3}
 export d0=${asmId:4:3}
 export d1=${asmId:7:3}
 export d2=${asmId:10:3}
 export dataDir="$gcX/$d0/$d1/$d2/$asmId"
 export srcDir="/hive/data/genomes/asmHubs/$dataDir"
 export faaFile="/cluster/home/hiram/kent/src/hg/makeDb/doc/asmHubs/rtp1.ace2.faa.gz"
 
 time (gfClient -genome=$asmId -genomeDataDir=$dataDir -t=dnax -q=prot \
-  $blatHost $blatPort $srcDir $faaFile stdout > $asmId.rtp1.ace2.psl) 2> $asmId.dynBlat.log
+  $blatHost $blatPort $srcDir $faaFile stdout > $asmId.rtp1.ace2.psl || true) 2> $asmId.dynBlat.log
 
+export errCount=`grep -w error $asmId.dynBlat.log | wc -l`
 export realTime=`grep -w real $asmId.dynBlat.log | awk '{print $NF}'`
 export resultLines=`pslScore $asmId.rtp1.ace2.psl | wc -l`
+if [ "${errCount}" -gt 0 ]; then
+  printf "%s\t%d\t%s\tERROR\n" "${asmId}" "${resultLines}" "${realTime}"
+else
   printf "%s\t%d\t%s\n" "${asmId}" "${resultLines}" "${realTime}"
+fi
 rm -f $asmId.rtp1.ace2.psl $asmId.dynBlat.log
 
 exit $?