Mercurial > repos > recetox > recetox_aplcms_align_features

changeset 1:b07fd3d7ffd0 draft

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planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit 699355cdf45b2157e9eea3962a01950d469fb0ba
author recetox
date Thu, 16 Jun 2022 10:26:58 +0000
parents 57c644d3f24c
children abe783e0daca
files recetox_aplcms_align_features.xml
diffstat 1 files changed, 19 insertions(+), 8 deletions(-) [+]
line wrap: on
line diff
--- a/recetox_aplcms_align_features.xml	Fri Jun 10 10:17:46 2022 +0000
+++ b/recetox_aplcms_align_features.xml	Thu Jun 16 10:26:58 2022 +0000
@@ -1,4 +1,4 @@
-<tool id="recetox_aplcms_align_features" name="RECETOX apLCMS - align features" version="@TOOL_VERSION@+galaxy0">
+<tool id="recetox_aplcms_align_features" name="RECETOX apLCMS - align features" version="@TOOL_VERSION@+galaxy1">
     <description>align features from LC/MS spectra across samples</description>
     <macros>
         <import>macros.xml</import>
@@ -44,10 +44,10 @@
     </configfiles>
 
     <inputs>
-        <param name="ms_files" type="data" format="mzdata,mzml,mzxml,netcdf" multiple="true" min="2" label="Input data"
-               help="Mass spectrometry file for peak extraction." />
-        <param name="corrected_files" type="data" format="parquet"  multiple="true" min="2"
-               label="Input corrected feature samples"
+        <param name="ms_files" type="data_collection" collection_type="list" format="mzdata,mzml,mzxml,netcdf"
+               label="Input data collection" help="Mass spectrometry file for peak extraction." />
+        <param name="corrected_files" type="data_collection" collection_type="list" format="parquet"
+               label="Input corrected feature samples collection"
                help="Mass spectrometry files containing corrected feature samples." />
         <expand macro="mz_tol_macro"/>
         <param name="min_exp" type="integer" min="1" value="2" label="min_exp"
@@ -63,9 +63,20 @@
 
     <tests>
         <test>
-            <param name="ms_files" value="mbr_test0.mzml,mbr_test1.mzml,mbr_test2.mzml" ftype="mzml"/>
-            <param name="corrected_files" ftype="parquet"
-                   value="corrected_expected/corrected_0.parquet,corrected_expected/corrected_1.parquet,corrected_expected/corrected_2.parquet"/>
+            <param name="ms_files">
+                <collection type="list">
+                    <element name="mbr_test0.mzml" value="mbr_test0.mzml"/>
+                    <element name="mbr_test1.mzml" value="mbr_test1.mzml"/>
+                    <element name="mbr_test2.mzml" value="mbr_test2.mzml"/>
+                </collection>
+            </param>
+            <param name="corrected_files">
+                <collection type="list">
+                    <element name="corrected_features_0.parquet" value="corrected_expected/corrected_0.parquet"/>
+                    <element name="corrected_features_1.parquet" value="corrected_expected/corrected_1.parquet"/>
+                    <element name="corrected_features_2.parquet" value="corrected_expected/corrected_2.parquet"/>
+                </collection>
+            </param>
             <output name="tolerances" file="tolerances.parquet" ftype="parquet"/>
             <output name="rt_cross_table" file="rt_cross_table.parquet" ftype="parquet"/>
             <output name="int_cross_table" file="int_cross_table.parquet" ftype="parquet"/>