diff erecord_text.xml @ 0:5edb952b394e draft default tip

planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/erecord-deploy/-/tree/main/galaxy-tools/erecord_text commit c9272a57d834895bf21c987be7d7416532cfa23f-dirty
author siwaa
date Tue, 27 Feb 2024 07:58:55 +0000
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/erecord_text.xml	Tue Feb 27 07:58:55 2024 +0000
@@ -0,0 +1,101 @@
+<tool id="erecord_text" name="erecord_text" version="1.0.0">
+
+  <description>erecord returning .json</description>
+
+  <requirements>
+
+    <!-- singularity -->
+    <container type="singularity">oras://registry.forgemia.inra.fr/nathalie.rousse/erecord-deploy/rep_recordb:9d6ea1defd50dd63fe036a7545a9ea527572192e</container>
+
+    <!-- image locale -->
+    <!-- container type="singularity">/home/nrousse/workspace_git/SIWAA_regroup/erecord-deploy/containers/_fab_SIMG/rep_recordb.simg</container-->
+
+  </requirements>
+
+  <command detect_errors="aggressive">
+    <![CDATA[
+    . /PYVENV/bin/activate;
+    /bin/bash -c "python3 $__tool_directory__/main_text.py -data '${input_text}' -datafolder ${datafolder}";
+    cp WS/OUT/output.json ${output_json};
+    ]]>
+  </command>
+
+  <inputs>
+
+    <param name="input_text" optional="true" type="text" area="true"
+           label="Input json as text"/>
+
+    <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_text.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_text.py
+
+Inputs:
+
+-------
+
+- data json as text (optional) (text, param type="text") 
+
+  - This data contains the action value
+  - Examples :
+
+    - {"action":"pkg_list"}
+    - {"action": "post_vpz_output", "pkgname": "wwdm", "vpzname": "wwdm.vpz", "style": "compactlist", "plan":"linear", "restype" : "matrix", "cond_wwdm.A": [0.0063, 0.0065, 0.0067], "cond_wwdm.B": 0.00201, "duration":6.0, "outselect": "view"}
+
+- 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>