diff saqc_executor.xml @ 0:99e2019c318c draft default tip

planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/blob/main/tools/saqc/ commit b674325a07b6e964e25cd65967149018dc2671fe

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/saqc_executor.xml	Sat Aug 16 11:43:38 2025 +0000
@@ -0,0 +1,56 @@
+<tool name="SaQC executor" id="saqc_executor" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="22.01">
+  <description>quality control for time series</description>
+  <creator>
+    <organization name="Helmholtz Centre for Environmental Research - UFZ, Research Data Management"
+                  url ="https://www.ufz.de/index.php?en=45348"/>
+  </creator>
+  <macros>
+    <import>macros.xml</import>
+  </macros>
+  <expand macro="requirements"/>
+  <version_command><![CDATA[python -c 'import saqc; print(saqc.__version__)']]></version_command>
+   <command detect_errors="exit_code"><![CDATA[
+  ln -s '$config' config.csv &&
+  #for $i, $d in enumerate($data)
+      ln -s '$d' '${i}.csv' &&
+  #end for
+  saqc -c config.csv
+  #for $i, $d in enumerate($data)
+      -d '${i}.csv'
+  #end for
+  -o output.csv
+  ]]></command>
+  <inputs>
+    <param label="Input Table(s)"
+           argument="--data"
+           type="data"
+           format="csv"
+           multiple="true"
+           optional="false"
+    />
+    <param label="Configuration"
+           argument="--config"
+           type="data"
+           format="txt"
+           optional="false"/>
+  </inputs>
+  <outputs>
+      <data name="output"
+            format="csv"
+            from_work_dir="output.csv"
+            hidden="false"/>
+  </outputs>
+  <tests>
+    <test>
+      <!-- https://rdm-software.pages.ufz.de/saqc/cookbooks/MultivariateFlagging.html -->
+      <param name="data" value="data.csv,maint.csv" ftype="csv"/>
+      <param name="config" value="config.txt" ftype="txt"/>
+      <output name="output" value="out.csv" ftype="csv"/>
+    </test>
+  </tests>
+  <help><![CDATA[
+  This tool runs the SaQC quality control pipeline specified by a config file on the input data.
+  Just upload your data and a config file, and the tool will run the SaQC pipeline on the data.
+]]></help>
+  <expand macro="citations"/>
+</tool>
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