# HG changeset patch
# User bgruening
# Date 1724830483 0
# Node ID b55199c56abdbcb810e6021b5adcfa3847e05e58
# Parent  4aec47f872b39f3225cf4f8f803509c2126cdc53
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 7b9eed035bb929af8907bb9f810b0c201562cdf2

diff -r 4aec47f872b3 -r b55199c56abd jbrowse2.xml
--- a/jbrowse2.xml	Tue Aug 20 09:10:27 2024 +0000
+++ b/jbrowse2.xml	Wed Aug 28 07:34:43 2024 +0000
@@ -105,7 +105,7 @@
                       </metadata>
                   </genome>
                 #else
-                  <genome path="$assembly.reference_genome.genome" label="${assembly.reference_genome.genome.name}" useuri="no">
+                  <genome path="$assembly.reference_genome.genome" label="${assembly.reference_genome.genome.element_identifier}" useuri="no">
                     <metadata>
 
                       <dataset id="${__app__.security.encode_id($assembly.reference_genome.genome.id)}"
@@ -171,7 +171,7 @@
                     <track cat="${tg.category}" format="${track.data_format.data_format_select}" visibility="${track.data_format.track_visibility}">
                     <files>
                         #for $dataset in $track.data_format.useuri.annotation:
-                              <trackFile path="${dataset}" ext="${dataset.ext}" label="${dataset.name}" useuri="no">
+                              <trackFile path="${dataset}" ext="${dataset.ext}" label="${dataset.element_identifier}" useuri="no">
                                 <metadata>
                                   <dataset id="${__app__.security.encode_id($dataset.id)}" hid="${dataset.hid}"
                                       size="${dataset.get_size(nice_size=True)}"
diff -r 4aec47f872b3 -r b55199c56abd macros.xml
--- a/macros.xml	Tue Aug 20 09:10:27 2024 +0000
+++ b/macros.xml	Wed Aug 28 07:34:43 2024 +0000
@@ -25,7 +25,7 @@
         </requirements>
     </xml>
     <token name="@DATA_DIR@">\$GALAXY_JBROWSE_SHARED_DIR</token>
-    <token name="@VERSION_SUFFIX@">0</token>
+    <token name="@VERSION_SUFFIX@">1</token>
     <xml name="creators">
         <creator>
             <person givenName="Helena" familyName="Rasche" url="https://github.com/hexylena"/>
@@ -344,9 +344,9 @@
                         </sanitizer>
                     </param>
                     <param name="autoscale" type="select" label="Autoscale type">
-                        <option value="local" selected="true">Local</option>
                         <option value="global">Global</option>
-                        <option value="globalsd">Global ± 3σ</option>
+                        <option value="globalsd"  selected="true">Global ± 3σ</option>
+                        <option value="local">Local</option>
                         <option value="localsd">Local ± 3σ</option>
                     </param>
                     <param name="resolution" type="integer" value="1" label="Resolution"/>