Mercurial > repos > marcoalbuquerque > bam_parallelism_test

diff bam_parallelism_test.xml @ 10:b90e70fb1ac5 draft

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Uploaded
author marcoalbuquerque
date Mon, 02 Mar 2015 20:32:01 -0500
parents 06f281bbdf5b
children 219c97989aa7
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line diff
--- a/bam_parallelism_test.xml	Mon Mar 02 20:30:00 2015 -0500
+++ b/bam_parallelism_test.xml	Mon Mar 02 20:32:01 2015 -0500
@@ -8,7 +8,13 @@
 		ln -s $normal input.bam;
 		ln -s $normal.metadata.bam_index input.bam.bai;
 
-		samtools view input.bam \$(cat $infile) | head -n 5 > $outfile;
+		touch $outfile;
+
+		cat $infile;
+
+		echo \$(cat $infile);
+
+		samtools view input.bam \$(cat $infile) | head -n 5 >> $outfile;
 
 	</command>
 	<inputs>