diff erecord_json.xml @ 0:8a0659f23df7 draft

planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/erecord-deploy/-/tree/main/galaxy-tools/erecord_json commit 88beb443a737b4c4d42bb0011a26a0acf535c366
author siwaa
date Tue, 12 Dec 2023 17:37:35 +0000
parents
children d87b8a1073ad
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/erecord_json.xml	Tue Dec 12 17:37:35 2023 +0000
@@ -0,0 +1,91 @@
+<tool id="erecord_json" name="erecord_json" version="1.0.0">
+
+  <description>erecord returning .json</description>
+
+  <requirements>
+
+    <!-- singularity -->
+    <container type="singularity">oras://registry.forgemia.inra.fr/nathalie.rousse/erecord-deploy/erecord_rep0_vle2:82d8fea607be20851e194828125785fb0f7e96d0</container>
+
+  </requirements>
+
+  <command detect_errors="aggressive">
+    <![CDATA[
+    /bin/bash -c "python3 $__tool_directory__/main_json.py -data ${input_json} -datafolder ${datafolder}";
+    cp WS/OUT/output.json ${output_json};
+    ]]>
+  </command>
+
+  <inputs>
+
+    <param name="input_json" optional="true" type="data" format="json"
+           label="Input json file"/>
+
+    <param name="datafolder" optional="true" type="data" format="zip"
+           label="Add a datafolder zip file (available and used only in 'post_vpz_output' or 'post_vpz_inout' cases)"
+           help="Precisions sur forme du dossier..."/>
+
+  </inputs>
+
+  <outputs>
+    <data format="json" name="output_json" label="jsonoutput"/>
+  </outputs>
+
+  <tests>
+  </tests>
+
+  <help><![CDATA[
+
+erecord_json.xml
+
+================
+
+Actions:
+
+-------
+
+- Available :
+  - 'get_vpz_input' 'post_vpz_input'
+  - 'get_vpz_output' 'post_vpz_output'
+  - 'get_vpz_inout' 'post_vpz_inout'
+  - 'get_pkg_list' 'get_pkg_vpz_list' 'get_pkg_data_list'
+  - 'help'
+
+- Unavailable (actions with 2 output files) :
+  - 'get_vpz_experiment' 'post_vpz_experiment'
+  - 'get_vpz_report_conditions' 'post_vpz_report_conditions'
+  - 'get_vpz_report' 'post_vpz_report'
+
+Code:
+
+----
+
+- main_json.py
+
+Inputs:
+
+-------
+
+- data json file (optional) (json file, param type="data") 
+
+  This file contains the action value
+
+- datafolder (optional) (only in 'post_vpz_output', 'post_vpz_inout' cases)
+
+Outputs:
+
+--------
+
+- data json file (no other file returned)
+
+Credits:
+
+--------
+
+-  Author: Nathalie Rousse nathalie.rousse@inrae.fr
+-  Copyright: INRAE
+
+  ]]>
+  </help>
+
+</tool>