diff eggnog_mapper.xml @ 7:4e4c6329f6cd draft

"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/eggnog_mapper/eggnog_mapper commit fd234f7532b34a1b6ced0d3ac53a8f42348e23f7"

--- a/eggnog_mapper.xml	Sat Sep 05 07:21:28 2020 +0000
+++ b/eggnog_mapper.xml	Fri Feb 19 18:54:25 2021 +0000
@@ -1,4 +1,4 @@
-<tool id="eggnog_mapper" name="eggNOG Mapper" version="@VERSION@">
+<tool id="eggnog_mapper" name="eggNOG Mapper" version="@VERSION@+galaxy1">
     <description>functional sequence annotation by orthology</description>
     <macros>
         <import>eggnog_macros.xml</import>
@@ -42,7 +42,9 @@
     <inputs>
         <param name="input" type="data" format="fasta" label="Fasta sequences to annotate"/>
         <param name="eggnog_data" type="select" label="Version of eggNOG Database">
-            <options from_data_table="eggnog_mapper_db"/>
+            <options from_data_table="eggnog_mapper_db_versioned">
+                <filter type="static_value" column="3" value="@IDX_VERSION@" />
+            </options>
         </param>
         <param name="translate" type="boolean" truevalue="--translate" falsevalue="" checked="false"
             label="Are these coding DNA sequences that need to be translated?"/>
@@ -243,15 +245,15 @@
             <param name="eggnog_data" value="@EGGNOG_DB_VERSION@"/>
             <param name="no_annot" value="true"/>
             <param name="no_file_comments" value="true"/>
-            <output name="seed_orthologs" file="DIA_nlim.emapper.seed_orthologs" ftype="tabular"/>
+            <output name="seed_orthologs" file="DIA_nlim.emapper.seed_orthologs" ftype="tabular" compare="sim_size"/>
         </test>
         <test>
             <param name="input" value="Nmar_0135.fa" ftype="fasta"/>
             <param name="eggnog_data" value="@EGGNOG_DB_VERSION@"/> <!-- not passed in test, but required for test to work -->
             <param name="report_orthologs" value="true"/>
             <param name="no_file_comments" value="true"/>
-            <output name="seed_orthologs" file="DIA_nlim.emapper.seed_orthologs" ftype="tabular"/>
-            <output name="annotations" file="DIA_nlim.emapper.annotations" ftype="tabular"/>
+            <output name="seed_orthologs" file="DIA_nlim.emapper.seed_orthologs" ftype="tabular" compare="sim_size"/>
+            <output name="annotations" file="DIA_nlim.emapper.annotations" ftype="tabular" compare="sim_size"/>
             <output name="annotations_orthologs" file="DIA_nlim.emapper.annotations_orthologs" ftype="tabular"/>
         </test>
         <test>
@@ -262,8 +264,8 @@
             <section name="annotation_options">
                 <param name="tax_scope" value="651137" />
             </section>
-            <output name="seed_orthologs" file="scoped.emapper.seed_orthologs" ftype="tabular"/>
-            <output name="annotations" file="scoped.emapper.annotations" ftype="tabular"/>
+            <output name="seed_orthologs" file="scoped.emapper.seed_orthologs" ftype="tabular" compare="sim_size"/>
+            <output name="annotations" file="scoped.emapper.annotations" ftype="tabular" compare="sim_size"/>
             <output name="annotations_orthologs" file="scoped.emapper.annotations_orthologs" ftype="tabular"/>
         </test>
     </tests>