Enable -skip-ooo in example.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@tomclegg.ca>

diff --git a/example-su92l-1kg.sh b/example-su92l-1kg.sh
index b73fcfed50c0368b76f7bb8299fb187714783ce3..6ca93ac2784bfb93e16d8393d6cec808fca85cb2 100755 (executable)
--- a/example-su92l-1kg.sh
+++ b/example-su92l-1kg.sh
@@ -16,7 +16,7 @@ tagset=su92l-4zz18-92bx4zjg5hgs3yc/tagset.fa.gz
 
 genome=$(lightning     ref2genome   -project ${project} -priority ${priority} -ref ${ref_fa})
 fasta=$(lightning      vcf2fasta    -project ${project} -priority ${priority} -ref ${ref_fa} -genome ${genome} -mask=true ${gvcf})
-unfiltered=$(lightning import       -project ${project} -priority ${priority} -tag-library ${tagset} ${fasta})
+unfiltered=$(lightning import       -project ${project} -priority ${priority} -tag-library ${tagset} -skip-ooo=true ${fasta})
 filtered=$(lightning   filter       -project ${project} -priority ${priority} -i ${unfiltered} -min-coverage "0.9" -max-variants "30")
 numpy=$(lightning      export-numpy -project ${project} -priority ${priority} -i ${filtered})
 pca=$(lightning        pca          -project ${project} -priority ${priority} -i ${numpy})