Moved Library Complexity into jar (23f80dd0) · Commits · Chaos / chaos.juicer

CPU/juicer.sh

+2 −2

Changes for CPU/juicer.sh: 2 added lines, 2 removed lines.
Original line number	Diff line number	Diff line
		@@ -569,7 +569,7 @@ then
		tail -n1 $headfile \| awk '{printf"%-1000s\n", $0}' > $outputdir/inter.txt;
		${juiceDir}/scripts/common/statistics.pl -s $site_file -l $ligation -o $outputdir/stats_dups.txt $outputdir/dups.txt
		cat $splitdir/*.res.txt \| awk -f ${juiceDir}/scripts/common/stats_sub.awk >> $outputdir/inter.txt
		java -cp ${juiceDir}/scripts/common/ LibraryComplexity $outputdir inter.txt >> $outputdir/inter.txt
		${juiceDir}/scripts/common/juicer_tools LibraryComplexity $outputdir inter.txt >> $outputdir/inter.txt
		${juiceDir}/scripts/common/statistics.pl -s $site_file -l $ligation -o $outputdir/inter.txt -q 1 $outputdir/merged_nodups.txt

		if [ "$nofrag" -eq 1 ]
		@@ -580,7 +580,7 @@ then
		fi
		tail -n1 $headfile \| awk '{printf"%-1000s\n", $0}' > $outputdir/inter_30.txt;
		cat $splitdir/*.res.txt \| awk -f ${juiceDir}/scripts/common/stats_sub.awk >> $outputdir/inter_30.txt
		java -cp ${juiceDir}/scripts/common/ LibraryComplexity $outputdir inter_30.txt >> $outputdir/inter_30.txt
		${juiceDir}/scripts/common/juicer_tools LibraryComplexity $outputdir inter_30.txt >> $outputdir/inter_30.txt
		${juiceDir}/scripts/common/statistics.pl -s $site_file -l $ligation -o $outputdir/inter_30.txt -q 30 $outputdir/merged_nodups.txt
		if [ "$nofrag" -eq 1 ]
		then