diff recetox_aplcms_hybrid.xml @ 1:867c737a7f10 draft

planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit b3e0c34f12c9c38fb34bf48197974620d60b50c5

--- a/recetox_aplcms_hybrid.xml	Tue Mar 22 16:10:17 2022 +0000
+++ b/recetox_aplcms_hybrid.xml	Thu May 26 16:46:40 2022 +0000
@@ -59,7 +59,11 @@
 
     <expand macro="inputs">
         <expand macro="history_db"/>
-        <expand macro="noise_filtering"/>
+        <expand macro="noise_filtering">
+            <param name="min_exp" type="integer" min="1" value="2"
+            label="min_exp"
+            help="If a feature is to be included in the final feature table, it must be present in at least this number of samples." />
+        </expand>
         <expand macro="feature_detection"/>
         <expand macro="peak_alignment"/>
         <expand macro="weak_signal_recovery"/>
@@ -67,8 +71,14 @@
     </expand>
 
     <outputs>
-        <expand macro="unsupervised_outputs"/>
-        <data name="updated_known_table" format="parquet" label="${tool.name} updated_known_table on ${on_string}"/>
+        <expand macro="unsupervised_outputs">
+            <collection  name="extracted_features" type="list" label="${tool.name} extracted_features on ${on_string}">
+                <discover_datasets pattern="__designation__" directory="extracted" format="parquet" />
+            </collection >
+            <collection  name="corrected_features" type="list" label="${tool.name} corrected_features on ${on_string}">
+                <discover_datasets pattern="__designation__" directory="corrected" format="parquet" />
+            </collection >
+        </expand>
         <data name="feature_known_table_pairing" format="tabular"
               label="${tool.name} feature_known_table_pairing on ${on_string}" hidden="true"/>
     </outputs>