alter output

tasks/export.wdl

     String disk_size
 
     command <<<
-		    mkdir -p /cromwell_root/tmp/cnvkit
-		    cp -r ${sep=" " results} /cromwell_root/tmp/cnvkit
-		    cd /cromwell_root/tmp/cnvkit
+		    #mkdir -p /cromwell_root/tmp/cnvkit
+		    cp -r ${sep=" " results} .
+		    #cd /cromwell_root/tmp/cnvkit
 		    # this version app just provides seg
-		    cnvkit.py export seg *.cns -o /cromwell_root/tmp/cnvkit/${sample_id}.seg
+		    cnvkit.py export seg *.cns -o ${sample_id}.seg
     >>>
    
     runtime {