Mercurial > repos > ebi-gxa > scanpy_run_pca

diff scanpy-run-pca.xml @ 26:4428dba93375 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 16:43:36 +0000
parents f0eecf608220
children
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--- a/scanpy-run-pca.xml	Fri Oct 13 14:09:30 2023 +0000
+++ b/scanpy-run-pca.xml	Tue Feb 27 16:43:36 2024 +0000
@@ -1,5 +1,5 @@
 <?xml version="1.0" encoding="utf-8"?>
-<tool id="scanpy_run_pca" name="Scanpy RunPCA" version="@TOOL_VERSION@+galaxy93" profile="@PROFILE@">
+<tool id="scanpy_run_pca" name="Scanpy RunPCA" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
   <description>for dimensionality reduction</description>
   <macros>
     <import>scanpy_macros2.xml</import>
@@ -74,8 +74,12 @@
       <param name="svd_solver" value="arpack"/>
       <param name="random_seed" value="1"/>
       <param name="chunked" value="false"/>
-      <output name="output_h5" file="run_pca.h5" ftype="h5" compare="sim_size"/>
-      <output name="output_embed" file="run_pca.embeddings.tsv" ftype="tabular" compare="sim_size" >
+      <output name="output_h5" ftype="h5">
+        <assert_contents>
+          <has_h5_keys keys="obsm/X_pca"/>
+        </assert_contents>
+      </output>
+      <output name="output_embed" file="run_pca.embeddings.tsv" ftype="tabular" compare="sim_size" delta_frac="0.1" >
         <assert_contents>
           <has_n_columns n="51"/>
         </assert_contents>