# HG changeset patch
# User iuc
# Date 1726343928 0
# Node ID 0bf7fddf90c7d0203d95efa530a7b6e4df389b25
# Parent  6f0d0c784f099db137b9ddfc5d424926e4a6f7dc
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/anndata/ commit 67b3808b56df343798263ff0c905df8cb789edfa

diff -r 6f0d0c784f09 -r 0bf7fddf90c7 inspect.xml
--- a/inspect.xml	Sun Nov 12 16:43:58 2023 +0000
+++ b/inspect.xml	Sat Sep 14 19:58:48 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="anndata_inspect" name="Inspect AnnData" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@">
+<tool id="anndata_inspect" name="Inspect AnnData" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
     <description>object</description>
     <macros>
         <import>macros.xml</import>
@@ -283,7 +283,7 @@
             </conditional>
             <output name="uns_neighbors_connectivities" ftype="mtx">
                 <assert_contents>
-                    <has_text_matching expression="100	100	1248" />
+                    <has_text_matching expression="100	100	2496" />
                     <has_text_matching expression="4.880" />
                 </assert_contents>
             </output>
@@ -305,14 +305,14 @@
             <output name="uns_paga_connectivities" ftype="mtx">
                 <assert_contents>
                     <has_text_matching expression="16	16	97" />
-                    <has_text_matching expression="1.000" />
+                    <has_text_matching expression="2 1 1" />
                     <has_text_matching expression="8.839" />
                 </assert_contents>
             </output>
             <output name="uns_paga_connectivities_tree" ftype="mtx">
                 <assert_contents>
                     <has_text_matching expression="16	16	15" />
-                    <has_text_matching expression="1.000" />
+                    <has_text_matching expression="1 2 1" />
                 </assert_contents>
             </output>
         </test>
diff -r 6f0d0c784f09 -r 0bf7fddf90c7 macros.xml
--- a/macros.xml	Sun Nov 12 16:43:58 2023 +0000
+++ b/macros.xml	Sat Sep 14 19:58:48 2024 +0000
@@ -1,6 +1,7 @@
 <macros>
-    <token name="@TOOL_VERSION@">0.10.3</token>
+    <token name="@TOOL_VERSION@">0.10.9</token>
     <token name="@VERSION_SUFFIX@">0</token>
+    <token name="@PROFILE@">21.09</token>
     <xml name="requirements">
         <requirements>
             <requirement type="package" version="@TOOL_VERSION@">anndata</requirement>
@@ -21,12 +22,6 @@
 python '$script_file'
     ]]>
     </token>
-    <token name="@LOOMCMD@"><![CDATA[
-mkdir ./output &&
-mkdir ./attributes &&
-python '$__tool_directory__/loompy_to_tsv.py' -f '${hd5_format.input}'
-    ]]>
-    </token>
     <token name="@CMD_imports@"><![CDATA[
 import anndata as ad
     ]]>
@@ -76,4 +71,11 @@
             </when>
         </conditional>
     </xml>
+    <xml name="sanitize_query" token_validinitial="string.printable">
+        <sanitizer>
+            <valid initial="@VALIDINITIAL@">
+                <remove value="&apos;" />
+            </valid>
+       </sanitizer>
+    </xml>
 </macros>
diff -r 6f0d0c784f09 -r 0bf7fddf90c7 test-data/addloomout1.loom
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diff -r 6f0d0c784f09 -r 0bf7fddf90c7 test-data/addloomout3.loom
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diff -r 6f0d0c784f09 -r 0bf7fddf90c7 test-data/converted.loom.test
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diff -r 6f0d0c784f09 -r 0bf7fddf90c7 test-data/export.krumsiek11.loom
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diff -r 6f0d0c784f09 -r 0bf7fddf90c7 test-data/import.csv.h5ad
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diff -r 6f0d0c784f09 -r 0bf7fddf90c7 test-data/manipulate.add_annotation_obs.h5ad
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diff -r 6f0d0c784f09 -r 0bf7fddf90c7 test-data/manipulate.add_annotation_var.h5ad
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diff -r 6f0d0c784f09 -r 0bf7fddf90c7 test-data/manipulate.concatenate.h5ad
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diff -r 6f0d0c784f09 -r 0bf7fddf90c7 test-data/pp.neighbors_umap_euclidean.recipe_weinreb17.paul15_subsample.h5ad
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