Mercurial > repos > iuc > funannotate_annotate

diff funannotate_annotate.xml @ 7:b6b5cd37f2a2 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/funannotate commit 90acc0e23230b2e29e1d38a90bca4009c84c7e67
author iuc
date Fri, 20 Oct 2023 10:07:28 +0000
parents 582fd74dc2a1
children 756376aeb1ae
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line diff
--- a/funannotate_annotate.xml	Tue Apr 25 18:29:19 2023 +0000
+++ b/funannotate_annotate.xml	Fri Oct 20 10:07:28 2023 +0000
@@ -71,6 +71,14 @@
 
 &&
 
+## funannotate sometimes leaves multiple *part.tbl and *part.sqn files
+## https://github.com/nextgenusfs/funannotate/issues/777
+find output/annotate_results 
+-regex ".*part_[0-9]\+\.\(sqn\|tbl\)$"
+-delete
+
+&&
+
 mv output/annotate_results/*.gbk out.gbk &&
 mv output/annotate_results/*.annotations.txt out.annotations.txt &&
 mv output/annotate_results/*.contigs.fsa out.contigs.fsa &&
@@ -206,7 +214,7 @@
         </data>
     </outputs>
     <tests>
-        <test>
+        <test expect_num_outputs="16">
             <conditional name="input">
                 <param name="input_type" value="gbk" />
                 <param name="genbank" value="predict_augustus/Genus_species.gbk" />
@@ -296,7 +304,7 @@
                 </assert_contents>
             </output>
         </test>
-        <test>
+        <test expect_num_outputs="16">
             <conditional name="input">
                 <param name="input_type" value="gff" />
                 <param name="gff" value="predict_augustus/Genus_species.gff3" />