diff --git a/tools/tertiary-analysis/scanpy/scanpy-filter-genes.xml b/tools/tertiary-analysis/scanpy/scanpy-filter-genes.xml
index a32f9b01..659ae1a3 100644
--- a/tools/tertiary-analysis/scanpy/scanpy-filter-genes.xml
+++ b/tools/tertiary-analysis/scanpy/scanpy-filter-genes.xml
@@ -82,7 +82,11 @@ $force_recalc
         <param name="min" value="0"/>
         <param name="max" value="1e9"/>
       </repeat>
-      <output name="output_h5" file="filter_genes.h5" ftype="h5" compare="sim_size" delta_frac="0.1"/>
+      <output name="output_h5" ftype="h5">
+        <assert_contents>
+          <has_h5_keys keys="obs/n_genes_by_counts"/>
+        </assert_contents>
+      </output>
     </test>
   </tests>