Improve new QSUB_1NODE scripts

vislabwwy · Jun 26, 2017 · 494e05d · 494e05d
1 parent 5b2332a
commit 494e05d
Show file tree

Hide file tree

Showing 3 changed files with 8 additions and 8 deletions.
diff --git a/00_ENV/QSUB_1NODE.sht b/00_ENV/QSUB_1NODE.sht
@@ -15,7 +15,7 @@
 # /dev/null, which suppresses output.
 #
 # ierrfile is one of {0,1}. Zero joins stderr to stdout. One creates
-# an error file named "<jobname>.e".
+# an error file named "<jobname>.err".
 
 
 QSUB_1NODE_SGE.sht "$1" "$2" "$3" "$4" "$5" "$6"

diff --git a/00_ENV/QSUB_1NODE_LSF.sht b/00_ENV/QSUB_1NODE_LSF.sht
@@ -13,7 +13,7 @@
 # /dev/null, which suppresses output.
 #
 # ierrfile is one of {0,1}. Zero joins stderr to stdout. One creates
-# an error file named "<jobname>.e".
+# an error file named "<jobname>.err".
 #
 # Aligner requires:
 # -J <jobname>	;jobname
@@ -65,12 +65,12 @@ if [ $4 == 0 ]
 then
   errorcmd=""
 else
-  errorcmd="-e $2.e"
+  errorcmd="-e $2.err"
 fi
 
 # Following produces diagnostic stdout/stderr email (no outfile spec)
-#bsub $time_hint -J $2 $req_params $usr_params -n $5 $6
+#bsub $time_hint -J "$2" $req_params $usr_params -n $5 "$6"
 
 # Following is standard execution, no email
-bsub $time_hint -J $2 $req_params $usr_params -o $outfile $errorcmd -n $5 $6
+bsub $time_hint -J "$2" $req_params $usr_params -o $outfile $errorcmd -n $5 "$6"
 
diff --git a/00_ENV/QSUB_1NODE_SGE.sht b/00_ENV/QSUB_1NODE_SGE.sht
@@ -14,7 +14,7 @@
 # /dev/null, which suppresses output.
 #
 # ierrfile is one of {0,1}. Zero joins stderr to stdout. One creates
-# an error file named "<jobname>.e".
+# an error file named "<jobname>.err".
 #
 # Aligner requires:
 # -N <jobname>	;jobname
@@ -71,8 +71,8 @@ if [ $4 == 0 ]
 then
   errorcmd="-j y"
 else
-  errorcmd="-e $2.e"
+  errorcmd="-e $2.err"
 fi
 
-qsub $time_hint -N $2 $req_params $usr_params -o $outfile $errorcmd -pe $pe_name $5 $6
+qsub $time_hint -N "$2" $req_params $usr_params -o $outfile $errorcmd -pe $pe_name $5 "$6"