From 7ceacc82b531ff860ec5233eedf26c4e7c12ba92 Mon Sep 17 00:00:00 2001
From: Helge Hecht <helge.hecht@recetox.muni.cz>
Date: Mon, 21 Oct 2024 09:40:58 +0000
Subject: [PATCH 1/2] Force input of rt correction in recetox-aplcms to be a
 collection

---
 tools/recetox_aplcms/recetox_aplcms_correct_time.xml | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/tools/recetox_aplcms/recetox_aplcms_correct_time.xml b/tools/recetox_aplcms/recetox_aplcms_correct_time.xml
index 82ea0ade..9ae9d3a0 100644
--- a/tools/recetox_aplcms/recetox_aplcms_correct_time.xml
+++ b/tools/recetox_aplcms/recetox_aplcms_correct_time.xml
@@ -1,4 +1,4 @@
-<tool id="recetox_aplcms_correct_time" name="recetox-aplcms - correct time" version="@TOOL_VERSION@+galaxy0" profile="21.09">
+<tool id="recetox_aplcms_correct_time" name="recetox-aplcms - correct time" version="@TOOL_VERSION@+galaxy1" profile="21.09">
     <description>correct retention time across samples for peak alignment</description>
     <macros>
         <import>macros.xml</import>
@@ -37,8 +37,8 @@
     </configfiles>
 
     <inputs>
-        <param label="Input clustered features table" name="features_table" type="data" format="parquet"
-               help="Mass spectrometry clustered features table." />
+        <param label="Input clustered features table" name="features_table" type="data_collection" collection_type="list" format="parquet"
+               help="Mass spectrometry clustered features tables." />
         <param label="Input template features table" name="template" type="data" format="parquet"
                help="Template features table." />
     </inputs>

From 3e2d9bcffeb6f1c0d5baa3f26a04fdf47b911cfd Mon Sep 17 00:00:00 2001
From: hechth <helge.hecht@recetox.muni.cz>
Date: Mon, 21 Oct 2024 13:30:48 +0200
Subject: [PATCH 2/2] fixed typo

---
 tools/recetox_aplcms/recetox_aplcms_correct_time.xml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/tools/recetox_aplcms/recetox_aplcms_correct_time.xml b/tools/recetox_aplcms/recetox_aplcms_correct_time.xml
index 9ae9d3a0..6e9cdb0f 100644
--- a/tools/recetox_aplcms/recetox_aplcms_correct_time.xml
+++ b/tools/recetox_aplcms/recetox_aplcms_correct_time.xml
@@ -37,9 +37,9 @@
     </configfiles>
 
     <inputs>
-        <param label="Input clustered features table" name="features_table" type="data_collection" collection_type="list" format="parquet"
+        <param label="Input clustered feature tables" name="features_table" type="data_collection" collection_type="list" format="parquet"
                help="Mass spectrometry clustered features tables." />
-        <param label="Input template features table" name="template" type="data" format="parquet"
+        <param label="Input template feature table" name="template" type="data" format="parquet"
                help="Template features table." />
     </inputs>