Mercurial > repos > iuc > humann

changeset 4:95bf7479d53c draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/humann commit 0a3abeca0535457ddf39c394001d61cd2e45afdd
author iuc
date Mon, 24 Apr 2023 18:59:49 +0000
parents 037c0b25c041
children fc6c328c292f
files humann.xml macros.xml tool-data/metaphlan_database.loc.sample
diffstat 3 files changed, 6 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/humann.xml	Wed Mar 29 19:59:38 2023 +0000
+++ b/humann.xml	Mon Apr 24 18:59:49 2023 +0000
@@ -12,7 +12,8 @@
                     <when value="cached">
                         <param name="cached_db" label="Cached database with clade-specific marker genes" type="select">
                             <options from_data_table="metaphlan_database">
-                                <validator message="No MetaPhlAn database is available" type="no_options" />
+                                <filter type="regexp" column="0" value=".*(vOct22_SGB|TOY|demo-db).*"/>
+                                <validator message="No MetaPhlAn database is available" type="no_options"/>
                             </options>
                         </param>
                     </when>
@@ -56,7 +57,7 @@
         <xml name="nucleotide_search">
             <section name="nucleotide_search" title="Nucleotide search / Mapping reads to community pangenomes"  expanded="true">
                 <conditional name="nucleotide_db">
-                    <param name="selector" type="select" label="Nucleotide database" help="For locally cached databases, you need first to execute the tool to download HUMAnN2 databases">
+                    <param name="selector" type="select" label="Nucleotide database" help="For locally cached databases, you need first to execute the tool to download HUMAnN databases">
                         <option value="cached" selected="true">Locally cached</option>
                         <option value="history">From history</option>
                     </param>
@@ -102,7 +103,7 @@
         <xml name="translated_search">
             <section name="translated_search" title="Translated search / Aligning unmapped reads to a protein database" expanded="true">
                 <conditional name="protein_db">
-                    <param name="selector" type="select" label="Protein database" help="For locally cached databases, you need first to execute the tool to download HUMAnN2 databases">
+                    <param name="selector" type="select" label="Protein database" help="For locally cached databases, you need first to execute the tool to download HUMAnN databases">
                         <option value="cached" selected="true">Locally cached</option>
                         <option value="history">From history</option>
                     </param>
--- a/macros.xml	Wed Mar 29 19:59:38 2023 +0000
+++ b/macros.xml	Mon Apr 24 18:59:49 2023 +0000
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <macros>
-    <token name="@TOOL_VERSION@">3.6.1</token>
+    <token name="@TOOL_VERSION@">3.7</token>
     <token name="@VERSION_SUFFIX@">0</token>
     <token name="@PROFILE@">22.01</token>
     <xml name="edam_ontology">
--- a/tool-data/metaphlan_database.loc.sample	Wed Mar 29 19:59:38 2023 +0000
+++ b/tool-data/metaphlan_database.loc.sample	Mon Apr 24 18:59:49 2023 +0000
@@ -5,4 +5,4 @@
 # - db-name
 # - build
 # - /path/to/data 
-#02_16_2014	 MetaPhlAn2 clade-specific marker genes	db_v20	/path/to/data
\ No newline at end of file
+#02_16_2014	 MetaPhlAn clade-specific marker genes	db_v20	/path/to/data