# HG changeset patch
# User iuc
# Date 1738660633 0
# Node ID 66367287b4e6b7a394a61390a2f754189579ff40
# Parent  5cc34c3f440ddba80cc323408c63830b4fc1b8e1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/minimap2 commit 980f7472892817697208792e4443fa579625b696

diff -r 5cc34c3f440d -r 66367287b4e6 macros.xml
--- a/macros.xml	Wed Apr 03 16:26:11 2024 +0000
+++ b/macros.xml	Tue Feb 04 09:17:13 2025 +0000
@@ -1,6 +1,6 @@
 <macros>
     <token name="@TOOL_VERSION@">2.28</token>
-    <token name="@VERSION_SUFFIX@">0</token>
+    <token name="@VERSION_SUFFIX@">1</token>
     <xml name="edam_ontology">
         <edam_topics>                                                                                  
             <edam_topic>topic_0102</edam_topic>
diff -r 5cc34c3f440d -r 66367287b4e6 minimap2.xml
--- a/minimap2.xml	Wed Apr 03 16:26:11 2024 +0000
+++ b/minimap2.xml	Tue Feb 04 09:17:13 2025 +0000
@@ -141,6 +141,9 @@
     #if $io_options.K:
         -K $io_options.K
     #end if
+    #if $io_options.eqx:
+        --eqx
+    #end if
     -t \${GALAXY_SLOTS:-4}
     reference.fa
     #if $fastq_input.fastq_input_selector in ['single', 'paired_iv']:
@@ -164,7 +167,6 @@
         -T "\${TMPDIR:-.}"
         -@\${GALAXY_SLOTS:-2}
         -O $io_options.output_format
-        $io_options.eqx
         --reference reference.fa
         --output-fmt-option no_ref
         -o '$alignment_output'