diff data_manager/pima_pv_downloader.xml @ 0:9972e1e07347 draft default tip

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/data_manager/pima_pv_downloader.xml	Mon Dec 12 15:02:14 2022 +0000
@@ -0,0 +1,30 @@
+<tool id="pima_pv_downloader" name="PIMA pv data manager" tool_type="manage_data" profile="21.09" version="1.0.0">
+    <description>Download plasmids_and_vectors.fasta files</description>
+    <requirements>
+        <requirement type="package" version="3.10.6">python</requirement>
+    </requirements>
+    <command detect_errors="exit_code"><![CDATA[
+python '$__tool_directory__/pima_pv_downloader.py'
+--out_file '$out_file'
+--url '$url'
+    ]]>
+    </command>
+    <inputs>
+        <param name="url" type="text" value="http://pima.appliedbinf.com/data/plasmids_and_vectors.fasta" label="URL to download the plasmids_and_vectors.fasta file"/>
+    </inputs>
+    <outputs>
+        <data name="out_file" format="data_manager_json"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="url" value="http://pima.appliedbinf.com/data/plasmids_and_vectors.fasta"/>
+            <output name="out_file" value="pima_pv.json" compare="contains"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+This tool downloads the current PIMA plasmids_and_vectors.fasta file for use by various PIMA tools.
+    ]]></help>
+    <citations>
+        <citation type="doi">10.1038/s41598-019-49700-1</citation>
+    </citations>
+</tool>