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author tduigou
date Mon, 03 Apr 2023 09:18:22 +0000
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1 # get_sbml_model - Pick an SBML model among a list
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3 ## How to run get_sbml_model wrapper tests
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5 In order to execute tests on get_sbml_model wrapper, you need to:
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7 - Connect to your galaxy instance in interactive mode:
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9 ```bash
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10 docker exec -it -u root galaxy_galaxy_1 bash
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11 ```
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12 - Copy all the contents of `test-data` folder into your own test-data directory which is located in your local galaxy instance : `/galaxy/test-data`. It contains all the input files and expected output files needed for the tests.
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13
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14 - Install Planemo:
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15 You can see here the documentation for Planemo Installation : https://planemo.readthedocs.io/en/latest/installation.html
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16 Note that they recommand to install Planemo by setting up a virtual environment:
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18 ```bash
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19 python3 -m venv planemo
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20 . planemo/bin/activate
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21 pip install -U planemo
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22 ```
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24 - run the tests:
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26 ```bash
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27 planemo test tools/synbiocad-galaxy-wrappers/get_sbml_model/wrap.xml
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28 ```
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30 IMPORTANT: Maybe you will need to remove CONDA from your PATH for the command `planemo test` to run correctly. To do that, you can edit this file `~/.bashrc`, comment this line `PATH="/root/anaconda3/bin:$PATH"` and save changes.
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32 Planemo will output an html test summary `tool_test_output.html`.