diff normalize.xml @ 23:2b6498d4c8c6 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/scanpy commit 732303de9670376c88e7afb2f23336ee1433e97d

--- a/normalize.xml	Wed Dec 03 10:04:10 2025 +0000
+++ b/normalize.xml	Thu Mar 26 12:50:57 2026 +0000
@@ -5,6 +5,7 @@
     </macros>
     <expand macro="bio_tools"/>
     <expand macro="requirements">
+        <requirement type="package" version="2.0.3">pandas</requirement>
         <requirement type="package" version="3.0.0">magic-impute</requirement>
     </expand>
     <expand macro="version_command"/>
@@ -29,9 +30,7 @@
     #if str($method.key_added) != '':
     key_added='$method.key_added',
     #end if
-    #if str($method.layer) != '':
-        layer='$method.layer',
-    #end if
+    @CMD_PARAM_LAYER@
     inplace=True)
 
 #else if str($method.method) == 'pp.recipe_zheng17':
@@ -124,9 +123,7 @@
                 <param argument="key_added" type="text" value="" optional="true" label="Name of the field in 'adata.obs' where the normalization factor is stored">
                     <expand macro="sanitize_query"/>
                 </param>
-                <param argument="layer" type="text" value="" label="Layer to normalize instead of X. If not provided, X is normalized.">
-                    <expand macro="sanitize_query"/>
-                </param>
+                <expand macro="param_layer" label="Layer to normalize instead of X. If not provided, X is normalized."/>
             </when>
             <when value="pp.recipe_zheng17">
                 <param argument="n_top_genes" type="integer" min="0" value="1000" label="Number of genes to keep"/>