Mercurial > repos > iuc > humann2_unpack_pathways

changeset 4:3115a530686e draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/humann2 commit 55eb503f50c54695ec36c3d4671c2b3e64d05f40"
author iuc
date Fri, 05 Feb 2021 18:23:16 +0000
parents 9704f1a3b32d
children cad93abecac9
files humann2_macros.xml humann2_unpack_pathways.xml
diffstat 2 files changed, 9 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/humann2_macros.xml	Mon Feb 01 18:22:12 2021 +0000
+++ b/humann2_macros.xml	Fri Feb 05 18:23:16 2021 +0000
@@ -7,6 +7,13 @@
             <yield/>
         </requirements>
     </xml>
+    
+    <xml name="stdio">
+        <stdio>
+            <regex match="Failed to allocate sufficient memory." source="stderr" level="fatal_oom" description="Out of memory error occurred" />
+            <regex match="MemoryError" source="stderr" level="fatal_oom" description="Out of memory error occurred" />
+        </stdio>
+    </xml>
     <xml name="version">
         <version_command>humann2 --version</version_command>
     </xml>
--- a/humann2_unpack_pathways.xml	Mon Feb 01 18:22:12 2021 +0000
+++ b/humann2_unpack_pathways.xml	Fri Feb 05 18:23:16 2021 +0000
@@ -1,8 +1,9 @@
-<tool id="humann2_unpack_pathways" name="Unpack pathway abundances to show genes included" version="@WRAPPER_VERSION@.0">
+<tool id="humann2_unpack_pathways" name="Unpack pathway abundances to show genes included" version="@WRAPPER_VERSION@.1">
     <description></description>
     <macros>
         <import>humann2_macros.xml</import>
     </macros>
+    <expand macro="stdio"/>
     <expand macro="requirements"/>
     <expand macro="version"/>
     <command detect_errors="exit_code"><![CDATA[