fix issue #20 #20

hall-lab · Mar 14, 2015 · 00980c3 · 00980c3
1 parent 064d68b
commit 00980c3
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Showing 3 changed files with 2 additions and 4 deletions.
diff --git a/Makefile b/Makefile
@@ -45,7 +45,7 @@ var: freebayes tabix vawk parallel config
 
 somatic: var
 
-sv: lumpy sambamba samblaster vawk bamkit cnvnator-multi config
+sv: lumpy sambamba samblaster vawk bamkit tabix cnvnator-multi config
 
 realign: bwa sambamba samblaster parallel mbuffer bamkit config
 

diff --git a/bin/speedseq b/bin/speedseq
@@ -1539,8 +1539,6 @@ cat  $TEMP_DIR/$OUTBASE.sv.vcf \\
 	rm -r ${TEMP_DIR}
     fi
 
-    echo "done"
-
     # exit cleanly
     exit 0
 }

diff --git a/src/lumpy-sv b/src/lumpy-sv
-Original file line number
+Diff line change
@@ Expand Up / @@ -1539,8 +1539,6 @@ cat $TEMP_DIR/$OUTBASE.sv.vcf \\ @@
     	rm -r ${TEMP_DIR}
         fi
-        echo "done"
         # exit cleanly
         exit 0
     }
@@ Expand Down @@