Fix output file name in shovill.xml (#7857)

* Fix output file name in shovill.xml

Galaxy Australia has had an issue with a blank graph output file from shovill. Jenna has raised an issue in this repo. The wrapper expects ‘out/contigs.gfa’ which does not exist. The .gfa output is ‘out/spades.gfa’.

* Bump tool version

---------

Co-authored-by: Saim Momin <mominsaim12@gmail.com>

Author: cat-bro

tools/shovill/shovill.xml

@@ -1,8 +1,9 @@
-<tool id="shovill" name="Shovill" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@">
+<tool id="shovill" name="Shovill" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
     <description>Faster SPAdes assembly of Illumina reads</description>
     <macros>
         <token name="@TOOL_VERSION@">1.4.2</token>
-        <token name="@VERSION_SUFFIX@">0</token>
+        <token name="@VERSION_SUFFIX@">1</token>
+        <token name="@PROFILE@">25.1</token>
     </macros>
     <xrefs>
         <xref type="bio.tools">shovill</xref>
@@ -136,7 +137,7 @@
             <filter>log == True</filter>
         </data>
         <data name="contigs" format="fasta" label="${tool.name} on ${on_string}: Contigs" from_work_dir="out/contigs.fa"/>
-        <data name="contigs_graph" format="txt"  label="${tool.name} on ${on_string}: Contig Graph" from_work_dir="out/contigs.gfa">
+        <data name="contigs_graph" format="txt"  label="${tool.name} on ${on_string}: Contig Graph" from_work_dir="out/spades.gfa">
             <filter> assembler_type['assembler'] != 'skesa' </filter>
         </data>
         <data name="bamfiles" format="unsorted.bam" from_work_dir="out/shovill.bam" label="Bam file for ${tool.name} on ${on_string}">