--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/pycoqc_plugin.xml	Mon Sep 02 14:22:54 2024 +0000
@@ -0,0 +1,39 @@
+<macros>
+    <token name="@PYCOQC_COMMAND@"><![CDATA[
+        #set $pattern = "\"pycoqc\":"
+        @LN_FILES@
+    ]]></token>
+    <xml name="pycoqc_form">
+        <param name="input" type="data" format="txt,json" multiple="true" label="Output of PycoQC"/>
+    </xml>
+    <!-- add here your test files and tests, the more stringent the better -->
+    <xml name="pycoqc_test">
+        <test expect_num_outputs="2">
+            <repeat name="results">
+                <conditional name="software_cond">
+                    <param name="software" value="pycoqc"/>
+                    <param name="input" value="pycoqc.json"/>
+                </conditional>
+            </repeat>
+            <param name="title" value="Title of the report"/>
+            <param name="comment" value="Commment for the report"/>
+            <!-- <param name="flat" value="true"/> -->
+            <output name="html_report">
+                <assert_contents>
+                    <has_text text="Title of the report"/>
+                    <has_text text="Commment for the report"/>
+                    <has_text text="General Statistics"/>
+                    <has_text text="pycoqc_count_plot"/>
+                    <has_text text="pycoqc_read_len_plot"/>
+                    <has_text text="pycoqc_read_qual_plot"/>
+                </assert_contents>
+            </output>
+            <output name="stats" ftype="tabular">
+                <assert_contents>
+                    <has_text text="pycoQC_mqc_generalstats_pycoqc_passed_median_read_length"/>
+                    <has_text text="pycoqc_json"/>
+                </assert_contents>
+            </output>
+        </test>
+    </xml>
+</macros>