# HG changeset patch
# User iuc
# Date 1595434873 14400
# Node ID 43cb7b5a6fe77f83d9e5d1bc3cea3ca489ff3c08
# Parent  d4af736e7b830066074932da98e5177823cd1700
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/anndata/ commit 033c2d20a0c73cd84c5c3aee73ae224183a9c1c2"

diff -r d4af736e7b83 -r 43cb7b5a6fe7 macros.xml
--- a/macros.xml	Mon Feb 10 05:21:44 2020 -0500
+++ b/macros.xml	Wed Jul 22 12:21:13 2020 -0400
@@ -1,6 +1,6 @@
 <macros>
     <token name="@VERSION@">0.6.22.post1</token>
-    <token name="@GALAXY_VERSION@">galaxy3</token>
+    <token name="@GALAXY_VERSION@">galaxy4</token>
     <xml name="requirements">
         <requirements>
             <requirement type="package" version="@VERSION@">anndata</requirement>
diff -r d4af736e7b83 -r 43cb7b5a6fe7 manipulate.xml
--- a/manipulate.xml	Mon Feb 10 05:21:44 2020 -0500
+++ b/manipulate.xml	Wed Jul 22 12:21:13 2020 -0400
@@ -26,7 +26,7 @@
     #for i, filepath in enumerate($manipulate.other_adatas)
 adata_$i = ad.read('$filepath')
     #end for
-adata.concatenate(
+adata = adata.concatenate(
     #for i, filepath in enumerate($manipulate.other_adatas)
     adata_$i,
     #end for
@@ -167,8 +167,8 @@
                 <param name="key" type="text" value="" label="Key for observations or variables annotation" help="Annotation key in obs or var"/>
                 <param name="categories" type="text" value="" label="Comma-separated list of new categories" help="It should be the same number as the old categories"/>
             </when>
-            <when value="strings_to_categoricals"/>
-            <when value="transpose"/>
+            <when value="strings_to_categoricals" ></when>
+            <when value="transpose" ></when>
             <when value="add_annotation">
                 <param name="var_obs" type="select" label="What to annotate?">
                     <option value="var">Variables (var)</option>
@@ -233,6 +233,7 @@
                     </when>
                 </conditional>
             </when>
+            <when value="save_raw"></when>
         </conditional>
     </inputs>
     <outputs>
diff -r d4af736e7b83 -r 43cb7b5a6fe7 test-data/manipulate.concatenate.h5ad
Binary file test-data/manipulate.concatenate.h5ad has changed