88df6e5ecb0ba85dee681e7c461e9c635932ad4f
hiram
  Tue Dec 6 18:19:47 2022 -0800
correct line break after info statement no redmine

diff --git src/hg/utils/automation/asmHubRepeatMasker.sh src/hg/utils/automation/asmHubRepeatMasker.sh
index 6e40ee0..ebaf002 100755
--- src/hg/utils/automation/asmHubRepeatMasker.sh
+++ src/hg/utils/automation/asmHubRepeatMasker.sh
@@ -98,31 +98,31 @@
       fi
     done
     wait
     fileCount=`(ls rmskClass/*RNA.tab 2> /dev/null || true) | wc -l`
     if [ "$fileCount" -gt 0 ]; then
       dateStamp=`date "+%FT%T %s"`
       printf "# %s bedToBigBed on rmskClass/*RNA.tab: " "${dateStamp}"
       ls rmskClass/*RNA.tab | xargs echo
       $HOME/kent/src/hg/utils/automation/rmskBed6+10.pl rmskClass/*RNA.tab \
          | sort -k1,1 -k2,2n > classBed/${asmId}.rmsk.RNA.bed
       bedToBigBed -tab -type=bed6+10 -as=$HOME/kent/src/hg/lib/rmskBed6+10.as \
          classBed/${asmId}.rmsk.RNA.bed "${chrSizes}" \
             bbi/${asmId}.rmsk.RNA.bb
     fi
     dateStamp=`date "+%FT%T %s"`
-    printf "# %s checking ls rmskClass/*.tab | egrep -v \"/SIN|/LIN|/LT|/DN|/Simple|/Low_complexity|/Satellit|RNA.tab\" " "${dateStamp}"
+    printf "# %s checking ls rmskClass/*.tab | egrep -v \"/SIN|/LIN|/LT|/DN|/Simple|/Low_complexity|/Satellit|RNA.tab\"\n" "${dateStamp}"
     otherCount=`(ls rmskClass/*.tab 2> /dev/null || true) | (egrep -v "/SIN|/LIN|/LT|/DN|/Simple|/Low_complexity|/Satellit|RNA.tab" || true) | wc -l`
     if [ "${otherCount}" -gt 0 ]; then
       dateStamp=`date "+%FT%T %s"`
       printf "# %s bedToBigBed on: " "${dateStamp}"
       ls rmskClass/*.tab | egrep -v "/SIN|/LIN|/LT|/DN|/Simple|/Low_complexity|/Satellit|RNA.tab" | xargs echo | sed -e 's#rmskClass/##g;'
       $HOME/kent/src/hg/utils/automation/rmskBed6+10.pl `ls rmskClass/*.tab | egrep -v "/SIN|/LIN|/LT|/DN|/Simple|/Low_complexity|/Satellit|RNA.tab" | sed -e 's/^/"/; s/$/"/;'|xargs echo` \
           | sort -k1,1 -k2,2n > classBed/${asmId}.rmsk.Other.bed
       bedToBigBed -tab -type=bed6+10 -as=$HOME/kent/src/hg/lib/rmskBed6+10.as \
         classBed/${asmId}.rmsk.Other.bed "${chrSizes}" \
           bbi/${asmId}.rmsk.Other.bb
     fi
 
     export bbiCount=`for F in bbi/*.rmsk.*.bb; do bigBedInfo $F | grep itemCount; done | awk '{print $NF}' | sed -e 's/,//g' | ave stdin | grep total | awk '{print $2}' | sed -e 's/.000000//'`
 
     export firstTabCount=`cat ${asmId}.rmsk.tab | wc -l`