diff recetox_aplcms_correct_time.xml @ 2:353b9d58d360 draft

planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit 724ecb1b81ebd8a67488b8a9397177b2ff0357db

--- a/recetox_aplcms_correct_time.xml	Mon Apr 03 14:56:27 2023 +0000
+++ b/recetox_aplcms_correct_time.xml	Wed May 24 14:49:35 2023 +0000
@@ -20,13 +20,12 @@
               }
 
               template_features <- load_data_from_parquet_file('$template')
-              tolerances <- load_data_from_parquet_file('$tolerances')
 
               corrected_table <- correct_time(
                    this.feature = features_table,
                    template_features = template_features,
-                   mz_tol_relative = get_mz_tol(tolerances),
-                   rt_tol_relative = get_rt_tol(tolerances)
+                   mz_tol_relative = $mz_tol_relative_ppm * 1e-06,
+                   rt_tol_relative = $rt_tol
               )
 
               corrected_table <- save_sample_name(corrected_table, sample_name)
@@ -39,8 +38,7 @@
                help="Mass spectrometry clustered features table." />
         <param label="Input template features table" name="template" type="data" format="parquet"
                help="Template features table." />
-        <param label="Input tolerances values" name="tolerances" type="data" format="parquet"
-               help="Table containing tolerance values." />
+        <expand macro="tolerances"/>
     </inputs>
 
     <outputs>