Mercurial > repos > ebi-gxa > anndata_ops

diff anndata_operations.xml @ 30:a4774b7b2e85 draft default tip

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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit ee197a80b2d591c393e1662854bc119b2ecab11e-dirty
author ebi-gxa
date Tue, 27 Feb 2024 16:42:14 +0000
parents 2e8022f1923c
children
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line diff
--- a/anndata_operations.xml	Fri Oct 13 14:07:21 2023 +0000
+++ b/anndata_operations.xml	Tue Feb 27 16:42:14 2024 +0000
@@ -1,6 +1,6 @@
 <?xml version="1.0" encoding="utf-8"?>
-<tool id="anndata_ops" name="AnnData Operations" version="@TOOL_VERSION@+galaxy93" profile="@PROFILE@">
-  <description>modifies metadata and flags genes</description>
+<tool id="anndata_ops" name="AnnData Operations" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
+  <description>is a Swiss army knife for AnnData files</description>
   <macros>
     <import>scanpy_macros2.xml</import>
   </macros>
@@ -446,7 +446,11 @@
   <tests>
     <test>
       <param name="input_obj_file" value="find_cluster.h5"/>
-      <output name="output_h5ad" file="anndata_ops.h5" ftype="h5ad" compare="sim_size"/>
+      <output name="output_h5ad" ftype="h5ad">
+        <assert_contents>
+          <has_h5_keys keys="var/gene_symbols"/>
+        </assert_contents>
+      </output>
     </test>
     <test>
       <param name="input_obj_file" value="mnn.h5"/>
@@ -511,7 +515,7 @@
         <param name="default" value="true"/>
         <param name="r_source" value="read_10x.h5"/>
       </conditional>
-      <output name="output_h5ad" file="anndata_ops_raw.h5" ftype="h5ad" compare="sim_size">
+      <output name="output_h5ad" ftype="h5ad">
         <assert_contents>
           <has_h5_keys keys="raw/X" />
         </assert_contents>
@@ -526,7 +530,7 @@
           <param name="dest" value='filtered'/>
         </repeat>
       </conditional>
-      <output name="output_h5ad" file="anndata_ops_xlayer.h5" ftype="h5ad" compare="sim_size">
+      <output name="output_h5ad" ftype="h5ad">
         <assert_contents>
           <has_h5_keys keys="layers/filtered" />
         </assert_contents>
@@ -541,7 +545,7 @@
         </repeat>
         <param name="layer_sources" value='anndata_ops_xlayer.h5'/>
       </conditional>
-      <output name="output_h5ad" file="anndata_ops_layer.h5" ftype="h5ad" compare="sim_size">
+      <output name="output_h5ad" ftype="h5ad">
         <assert_contents>
           <has_h5_keys keys="layers/filtered" />
         </assert_contents>