src/utils/qa/doGenbankTests 1.10

Index: src/utils/qa/doGenbankTests
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/utils/qa/doGenbankTests,v
retrieving revision 1.9
retrieving revision 1.10
diff -b -B -U 4 -r1.9 -r1.10
--- src/utils/qa/doGenbankTests	15 May 2009 02:24:02 -0000	1.9
+++ src/utils/qa/doGenbankTests	26 May 2009 23:21:13 -0000	1.10
@@ -48,9 +48,11 @@
   fi
   echo $res
 }
 
+# keep track of errors vs. no errors
 allOk=yes
+
 # specify tables that should get each test
 allTables="refGene xenoRefGene mgcFullMrna orfeomeMrna all_mrna intronEst /
            all_est xenoMrna xenoEst"
 genePredTables="refGene xenoRefGene mgcGenes orfeomeGenes"
@@ -58,19 +60,17 @@
            xenoRefSeqAli xenoEst"
 featureTables="refGene xenoRefGene mgcGenes mgcFullMrna orfeomeGenes /
                orfeomeMrna all_mrna intronEst all_est xenoMrna xenoEst"
 
-# check host, set path to genbank table list
+# check host, set path to genbank sanity location 
 if [ "$HOST" != hgwdev -a "$HOST" != hgwbeta ]
 then
   echo "This script must be run from hgwdev or hgwbeta." >&2
   exit 1
 elif [ "$HOST" = hgwdev ]
 then
-  genbankPath="/cluster/data/genbank/etc/genbank.tbls"
   sanityPath="/cluster/data/genbank"
 else #host is hgwbeta
-  genbankPath="/genbank/etc/genbank.tbls"
   sanityPath="/genbank"
 fi
 
 # get arguments / give usage statement
@@ -166,9 +166,9 @@
 done
 echo
 
 # run gbSanity
-filename=${db}.sanity.$(date +%m.%d.%Y-%R%p)
+filename=${db}.sanity.$(date +%m-%d-%Y.%R%p)
 echo -e "--> Running gbSanity, and putting output in:"
 echo -e "${HOST}:$sanityPath/misc/$filename"
 # need to run in a subshell, since gbSanity wants to be run from this dir
 (cd $sanityPath && bin/x86_64/gbSanity $db >& misc/$filename) || allOk=no