# HG changeset patch
# User bgruening
# Date 1710508370 0
# Node ID 1c6c961851debdd88a04cb201b977af43e01e3a5
# Parent  190175f4e14318dcf88843a5652ea6bba0258bf6
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/graphmap commit ba787e88cb93e78516b2fced5b60285d5f033ca3

diff -r 190175f4e143 -r 1c6c961851de graphmap_align.xml
--- a/graphmap_align.xml	Thu Sep 27 15:26:47 2018 -0400
+++ b/graphmap_align.xml	Fri Mar 15 13:12:50 2024 +0000
@@ -3,6 +3,7 @@
     <macros>
         <import>macros.xml</import>
     </macros>
+    <expand macro="xrefs" />
     <expand macro="requirements" />
     <command detect_errors="exit_code">
     <![CDATA[
@@ -40,19 +41,19 @@
         <test>
             <param name="r" value="Loman_E.coli_MAP006-1_2D_50x_first_500_reads.fasta"/>
             <param name="d" value="E.coli_contigs.fasta"/>
-            <output name="output" ftype="bam" file="result1_map.bam"/>
+            <output name="output" ftype="bam" file="result1_map.bam" lines_diff="2"/>
         </test>
         <test>
             <param name="r" value="Loman_E.coli_MAP006-1_2D_50x_first_500_reads.fasta"/>
             <param name="d" value="E.coli_contigs.fasta"/>
             <param name="preset" value="illumina"/>
-            <output name="output" ftype="bam" file="result2_map.bam"/>
+            <output name="output" ftype="bam" file="result2_map.bam" lines_diff="2"/>
         </test>
         <test>
             <param name="r" value="Loman_E.coli_MAP006-1_2D_50x_first_500_reads.fasta"/>
             <param name="d" value="E.coli_contigs.fasta"/>
             <param name="preset" value="sensitive"/>
-            <output name="output" ftype="bam" file="result3_map.bam"/>
+            <output name="output" ftype="bam" file="result3_map.bam" lines_diff="2"/>
         </test></tests>
     <help><![CDATA[
         GraphMap - A very accurate and sensitive long-read, high error-rate sequence mapper
@@ -60,4 +61,4 @@
         GraphMap is licensed under The MIT License.
     ]]></help>
     <expand macro="citations" />
-</tool>
\ No newline at end of file
+</tool>
diff -r 190175f4e143 -r 1c6c961851de macros.xml
--- a/macros.xml	Thu Sep 27 15:26:47 2018 -0400
+++ b/macros.xml	Fri Mar 15 13:12:50 2024 +0000
@@ -1,6 +1,10 @@
 <macros>
     <token name="@VERSION@">0.5.2</token>
-
+    <xml name="xrefs">
+        <xrefs>
+            <xref type="bio.tools">graphmap</xref>
+        </xrefs>
+    </xml>
     <xml name="requirements">
         <requirements>
         <requirement type="package" version="0.5.2">graphmap</requirement>
@@ -23,4 +27,4 @@
             <yield />
         </citations>
     </xml>
-</macros>
\ No newline at end of file
+</macros>