# HG changeset patch
# User iuc
# Date 1711556197 0
# Node ID 8ad84c5753ea4190c74386e255ac767066dac5a6
# Parent  2f1019071464920be70e6c8916e83ff8a3a7a601
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/pangolin commit d17dfb7bfc974b5369cc20d4c51ae30685c877ab

diff -r 2f1019071464 -r 8ad84c5753ea pangolin.xml
--- a/pangolin.xml	Thu Jul 20 05:39:41 2023 +0000
+++ b/pangolin.xml	Wed Mar 27 16:16:37 2024 +0000
@@ -1,8 +1,8 @@
-<tool id="pangolin" name="Pangolin" version="@TOOL_VERSION@+galaxy1" profile="20.01">
+<tool id="pangolin" name="Pangolin" version="@TOOL_VERSION@+galaxy2" profile="21.09">
     <description>Phylogenetic Assignment of Outbreak Lineages</description>
     <macros>
         <token name="@TOOL_VERSION@">4.3</token>
-        <token name="@PANGOLIN_DATA_VERSION@">1.21</token>
+        <token name="@PANGOLIN_DATA_VERSION@">1.26</token>
         <token name="@CONSTELLATIONS_VERSION@">0.1.12</token>
         <!-- a regex describing the pangolin-data versions that this wrapper version
         is backwards-compatible with; can be used with the min_pangolin_version
@@ -31,6 +31,9 @@
             </param>
         </xml>
     </macros>
+    <xrefs>
+        <xref type="bio.tools">pangolin_cov-lineages</xref>
+    </xrefs>
     <requirements>
         <requirement type="package" version="@TOOL_VERSION@">pangolin</requirement>
         <!-- Pin also the versions of all core dependencies - the ones
@@ -45,17 +48,17 @@
         Wrapper updates are **explicitly encouraged** when new dependency
         versions become available. Also, please check for updated dependencies
         when updating the wrapper for other reasons. -->
-        <requirement type="package" version="0.3.17">scorpio</requirement>
+        <requirement type="package" version="0.3.19">scorpio</requirement>
         <requirement type="package" version="@PANGOLIN_DATA_VERSION@">pangolin-data</requirement>
         <requirement type="package" version="@CONSTELLATIONS_VERSION@">constellations</requirement>
-        <requirement type="package" version="0.6.2">usher</requirement>
-        <requirement type="package" version="1.2.0">gofasta</requirement>
+        <requirement type="package" version="0.6.3">usher</requirement>
+        <requirement type="package" version="1.2.1">gofasta</requirement>
         <requirement type="package" version="448">ucsc-fatovcf</requirement>
-        <requirement type="package" version="2.26">minimap2</requirement>
+        <requirement type="package" version="2.27">minimap2</requirement>
         <!-- wrapper-specific requirements to turn pangolin's native
         comma-separated output into tab-separated one and to truncate
         pangolin's all-versions output. -->
-        <requirement type="package" version="0.26.0">csvtk</requirement>
+        <requirement type="package" version="0.30.0">csvtk</requirement>
         <requirement type="package" version="3.11">grep</requirement>
     </requirements>
     <version_command><![CDATA[pangolin --version]]></version_command>