Mercurial > repos > recetox > recetox_aplcms_remove_noise

diff recetox_aplcms_remove_noise.xml @ 9:ffbabefbd2e2 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms commit b88eaca14b030fc0023989f3c83479e4975d172a
author recetox
date Thu, 01 Aug 2024 10:59:18 +0000
parents 12bf74dd09f1
children 7acd11ddc061
line wrap: on
line diff
--- a/recetox_aplcms_remove_noise.xml	Thu May 30 14:53:21 2024 +0000
+++ b/recetox_aplcms_remove_noise.xml	Thu Aug 01 10:59:18 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="recetox_aplcms_remove_noise" name="recetox-aplcms - remove noise" version="@TOOL_VERSION@+galaxy3" profile="21.09">
+<tool id="recetox_aplcms_remove_noise" name="recetox-aplcms - remove noise" version="@TOOL_VERSION@+galaxy0" profile="21.09">
     <description>filter noise and detect peaks in high resolution mass spectrometry (HRMS) profile data</description>
     <macros>
         <import>macros.xml</import>
@@ -29,7 +29,8 @@
                 baseline_correct_noise_percentile = 0.05,
                 intensity_weighted = $intensity_weighted,
                 do.plot = FALSE,
-                cache = FALSE
+                cache = FALSE,
+                grouping_threshold = as.numeric('$grouping_threshold')
             )
 
             profile <- save_sample_name(profile, sample_name)
@@ -52,6 +53,11 @@
             <param name="input_file" value="mbr_test0.mzml" ftype="mzml"/>
             <output name="output_file" file="remove_noise_docker.parquet" ftype="parquet" />
         </test>
+        <test>
+            <param name="input_file" value="mbr_test0.mzml" ftype="mzml"/>
+            <param name="grouping_threshold" value="2" />
+            <output name="output_file" file="remove_noise_docker_threshold.parquet" ftype="parquet" />
+        </test>
     </tests>
 
     <help>