From 3a09144089be3b98b595a06d755df949cd489cff Mon Sep 17 00:00:00 2001
From: Tunc Kayikcioglu <19364610+tuncK@users.noreply.github.com>
Date: Mon, 24 Apr 2023 14:44:23 +0000
Subject: [PATCH 1/2] version update

---
 tools/humann/humann.xml                              | 4 ++--
 tools/humann/macros.xml                              | 2 +-
 tools/humann/tool-data/metaphlan_database.loc.sample | 2 +-
 3 files changed, 4 insertions(+), 4 deletions(-)

diff --git a/tools/humann/humann.xml b/tools/humann/humann.xml
index fa698a50e38..1a98f1dc9b1 100644
--- a/tools/humann/humann.xml
+++ b/tools/humann/humann.xml
@@ -56,7 +56,7 @@
         <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 +102,7 @@
         <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>
diff --git a/tools/humann/macros.xml b/tools/humann/macros.xml
index 95e24b8d2bd..adf84eb4dcf 100644
--- a/tools/humann/macros.xml
+++ b/tools/humann/macros.xml
@@ -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">
diff --git a/tools/humann/tool-data/metaphlan_database.loc.sample b/tools/humann/tool-data/metaphlan_database.loc.sample
index c760f7ca507..1a4f59aa831 100644
--- a/tools/humann/tool-data/metaphlan_database.loc.sample
+++ b/tools/humann/tool-data/metaphlan_database.loc.sample
@@ -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

From 4b28ccbfbf3ddff4e7017956ebc2876568f54b61 Mon Sep 17 00:00:00 2001
From: Tunc Kayikcioglu <19364610+tuncK@users.noreply.github.com>
Date: Mon, 24 Apr 2023 16:16:12 +0000
Subject: [PATCH 2/2] hide old DBs in DM

---
 tools/humann/humann.xml | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/tools/humann/humann.xml b/tools/humann/humann.xml
index 1a98f1dc9b1..9d9db844180 100644
--- a/tools/humann/humann.xml
+++ b/tools/humann/humann.xml
@@ -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>