Mercurial > repos > jpayne > seqsero2

diff seqsero2.xml @ 1:b747b2c8fdb6 draft default tip

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planemo upload commit 233f498f942f9253a7e6e1656157e59d38549c44-dirty
author jpayne
date Thu, 18 Sep 2025 22:57:05 +0000
parents 225680ef4cc1
children
line wrap: on
line diff
--- a/seqsero2.xml	Fri Aug 15 19:51:19 2025 +0000
+++ b/seqsero2.xml	Thu Sep 18 22:57:05 2025 +0000
@@ -1,13 +1,8 @@
 <tool id="seqsero_v2" name="SeqSero2 v1.3.1" version="9">
     <description>Salmonella serotype prediction</description>
-    <macros>
-        <token name="@VERSION@">1.3.1</token>
-    </macros>
     <requirements>
         <!-- <requirement type="package" version="@VERSION@">seqsero2</requirement> -->
-        <container>
-            <image>seqsero2:1.3.1</image>
-        </container>
+        <container type="docker">quay.io/biocontainers/seqsero2:1.3.1--pyhdfd78af_1</container>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
       mkdir ./output;
@@ -51,9 +46,9 @@
       echo $name ;
       echo "-=-=-=-=-" ;
       touch output/SeqSero_log.txt ;
-      SeqSero2_package.py --version ;
+      /usr/local/bin/SeqSero2_package.py --version ;
       echo "-=-=-=-=-" ;
-      SeqSero2_package.py
+      /usr/local/bin/SeqSero2_package.py
         -p \${GALAXY_SLOTS:-1}
         -t $tval 
         -m $mode