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planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
author siwaa
date Fri, 07 Jun 2024 11:20:24 +0000
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2:d203e560a4ef 3:e3153cc69e41
1 <tool id="gama_tool" name="gama" version="1.0.0b">
2
3 <description>tool for GAMA Platform</description>
4
5 <requirements>
6
7 <!-- singularity -->
8 <container type="singularity">oras://registry.forgemia.inra.fr/nathalie.rousse/use/gama:d01c3645810b3e5bf1b21170fd24d21fe1f831ec</container>
9
10 <!-- image locale
11 <container type="singularity">/home/nrousse/workspace_git/SIWAA_regroup/USE_branch_gama/use/GAMA/containers/gama.simg</container -->
12 </requirements>
13
14 <command detect_errors="aggressive">
15 <![CDATA[
16 cp -fr /opt/gama-platform .;
17 cp $__tool_directory__/src/MY_predatorPrey.gaml gama-platform/headless/samples/predatorPrey/.;
18 cp $__tool_directory__/src/MY_gama-headless.sh gama-platform/headless/.;
19 cp $__tool_directory__/src/MY_sequential_example.py .;
20 cp $__tool_directory__/src/cmd_gama_headless.sh .;
21 cp $__tool_directory__/src/cmd_python_client.sh .;
22 /bin/bash cmd_gama_headless.sh > run_server.txt & sleep 120 && /bin/bash cmd_python_client.sh $nb_preys_init $nb_predators_init $nb_more_steps > run_client.txt;
23 cp run_server.txt ${run_server_txt};
24 cp run_client.txt ${run_client_txt};
25 cp gama-platform/headless/samples/predatorPrey/results.txt ${results_txt};
26 ]]>
27 </command>
28
29 <inputs>
30
31 <param name="nb_preys_init" optional="true" type="integer"
32 value="200" min="0" max="1000"
33 label="nb_preys_init" help="[0, 1000]" />
34
35 <param name="nb_predators_init" optional="true" type="integer"
36 value="20" min="0" max="200"
37 label="nb_predators_init" help="[0, 200]" />
38
39 <param name="nb_more_steps" optional="true" type="integer"
40 value="10" min="4" max="100"
41 label="nb_more_steps" help="[4,100]" />
42
43 </inputs>
44
45 <outputs>
46 <data format="txt" name="run_server_txt" label="run_server_txt"/>
47 <data format="txt" name="run_client_txt" label="run_client_txt"/>
48 <data format="txt" name="results_txt" label="results_txt"/>
49 </outputs>
50
51 <tests>
52 </tests>
53
54 <help><![CDATA[
55
56 Desc:
57
58 -----
59
60 gama_tool.xml tool running a GAMA Python client interacting with gama-server
61 (Headless server) concerning a "Predator Prey" agent-based simulator.
62
63 Code: MY_sequential_example.py
64
65 Inputs:
66
67 - nb_preys_init
68 - nb_predators_init
69 - nb_more_steps
70
71 Outputs:
72
73 - results_txt file (.txt) : produced while running the simulator
74 (cf 'reflex save_result' into MY_predatorPrey.gaml).
75 - run_server_txt file (.txt) : gama-server screen display capture
76 - run_client_txt file (.txt) : gama-client screen display capture
77
78 Credits:
79
80 --------
81
82 - Author: Nathalie Rousse nathalie.rousse@inrae.fr
83 - Copyright: INRAE
84
85 ]]>
86 </help>
87
88 </tool>