# HG changeset patch
# User iuc
# Date 1542295885 18000
# Node ID 61ee47027bd39cc5d6c3f759737dcbb9462b4dce
# Parent  6daca6da305925af452b65bdc73f86f0c0f57b6a
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hisat2 commit 67cc9b86dcb40c7691cc85b77428117be25d6046

diff -r 6daca6da3059 -r 61ee47027bd3 hisat2.xml
--- a/hisat2.xml	Wed Sep 05 09:04:02 2018 -0400
+++ b/hisat2.xml	Thu Nov 15 10:31:25 2018 -0500
@@ -290,7 +290,9 @@
 ## Reporting options
 
 #if str($adv.reporting_options.reporting_options_selector) == "advanced":
-    -k ${adv.reporting_options.max_primary}
+    #if str($adv.reporting_options.max_primary) != '':
+        -k ${adv.reporting_options.max_primary}
+    #end if
 #end if
 
 
@@ -613,6 +615,7 @@
             <param name="history_item" ftype="fasta" value="phiX.fa" />
             <param name="input_1" ftype="fastqsanger" value="hisat_input_1_forward.fastq" />
             <param name="input_2" ftype="fastqsanger" value="hisat_input_1_reverse.fastq" />
+            <param name="adv|reporting_options|reporting_options_selector" value="advanced"/>
             <output name="output_alignments" file="hisat_output_1.bam" ftype="bam" lines_diff="2" />
         </test>
         <!-- Ensure advanced scoring options work -->