diff recetox_aplcms_compute_template.xml @ 0:38469e025939 draft

planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit 506df2aef355b3791567283e1a175914f06b405a

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/recetox_aplcms_compute_template.xml	Mon Feb 13 10:27:35 2023 +0000
@@ -0,0 +1,47 @@
+<tool id="recetox_aplcms_compute_template" name="recetox-aplcms - compute template" version="@TOOL_VERSION@+galaxy0">
+    <description>compute retention time correction template feature table</description>
+    <macros>
+        <import>macros.xml</import>
+        <import>help.xml</import>
+    </macros>
+    <expand macro="creator"/>
+    <expand macro="requirements"/>
+
+    <command detect_errors="aggressive"><![CDATA[
+        Rscript -e 'source("${__tool_directory__}/utils.R")' -e 'source("${run_script}")'
+    ]]></command>
+    <configfiles>
+         <configfile name="run_script"><![CDATA[
+              #set filenames = str("', '").join([str($f) for $f in $files])
+              feature_tables <- load_parquet_collection(c('$filenames'))
+
+              template_features <- compute_template(feature_tables)
+
+              save_data_as_parquet_file(template_features, '$output_file')
+         ]]></configfile>
+    </configfiles>
+
+    <inputs>
+        <param name="files" type="data_collection" collection_type="list" format="parquet" label="Input data"
+               help="Table containing clustered features." />
+    </inputs>
+
+    <outputs>
+        <data label="${tool.name} on ${on_string}" name="output_file" format="parquet" />
+    </outputs>
+
+    <tests>
+
+    </tests>
+
+    <help>
+        <![CDATA[
+            @COMPUTE_TEMPLATE_HELP@
+
+            @GENERAL_HELP@
+            
+        ]]>
+    </help>
+
+    <expand macro="citations"/>
+</tool>