Add Squirrel biotools (#6743)

* Add squirrel bio.tools * Fix remote_repository_url * Update tools/squirrel/.shed.yml --------- Co-authored-by: M Bernt <[email protected]>
galaxyproject · Feb 11, 2025 · d684b71 · d684b71
1 parent 79d072e
commit d684b71
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diff --git a/tools/squirrel/.shed.yml b/tools/squirrel/.shed.yml
@@ -5,7 +5,7 @@ long_description: |
   Squirrel provides a rapid way of producing reliable alignments for MPXV
   and also enable maximum-likelihood phylogenetics pipeline tree estimation.
 homepage_url: https://github.com/aineniamh/squirrel
-remote_repository_url: https://github.com/aineniamh/squirrel
+remote_repository_url: https://github.com/galaxyproject/tools-iuc/tree/main/tools/squirrel
 type: unrestricted
 categories:
   - Phylogenetics

diff --git a/tools/squirrel/macros.xml b/tools/squirrel/macros.xml
@@ -10,6 +10,11 @@
   <xml name="version_command">
     <version_command>squirrel --version</version_command>
   </xml>
+  <xml name="xrefs">
+    <xrefs>
+      <xref type="bio.tools">squirrel</xref>
+    </xrefs>
+  </xml>
   <xml name="citations">
     <citations>
         <citation type="bibtex">

diff --git a/tools/squirrel/squirrel-phylo.xml b/tools/squirrel/squirrel-phylo.xml
@@ -3,6 +3,7 @@
     <macros>
         <import>macros.xml</import>
     </macros>
+    <expand macro="xrefs"/>
     <expand macro="requirements"/>
     <expand macro="version_command"/>
 

diff --git a/tools/squirrel/squirrel-qc.xml b/tools/squirrel/squirrel-qc.xml
@@ -3,6 +3,7 @@
     <macros>
         <import>macros.xml</import>
     </macros>
+    <expand macro="xrefs"/>
     <expand macro="requirements"/>
     <expand macro="version_command"/>