intermine / intermine/intermine-ws-python-docs

Tutorial 4 final steps cause an error

Aberta
#24 2 comentários 0 reações 0 responsáveis Ver no GitHub
Linguagem predominante
Jupyter Notebook
Estrelas
14
Forks
19
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Descrição

This might actually be an issue with the python package, but I'll leave that up to you to decide and open in the python client repo if needed.

The issue is in the final couple of lines of tutorial 4 - I thought I'd add a printline statement to see the output for these two lines...

```
query.add_path_description("ontologyAnnotations.ontologyTerm","Ontology Term")
query.add_path_description("publications","Pub.")
```
But when I try to print we get a badly formed query error.

You can try it out yourself in [this binder instance](https://mybinder.org/v2/gh/yochannah/intermine-ws-python-docs/tutorial-4?filepath=04-tutorial.ipynb)

Error:
```python
WebserviceError: ('There was a problem with our request', 400, 'Bad Request', u"Query does not pass XML validation. cvc-complex-type.3.2.2: Attribute 'path' is not allowed to appear in element 'pathDescription'.\ncvc-complex-type.4: Attribute 'pathString' must appear on element 'pathDescription'.\ncvc-complex-type.3.2.2: Attribute 'path' is not allowed to appear in element 'pathDescription'.\ncvc-complex-type.4: Attribute 'pathString' must appear on element 'pathDescription'.\n")
```

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Direção de pesquisa

Open 04-tutorial.ipynb on the tutorial-4 branch and run the final cells in the linked Binder instance. Trace the two add_path_description calls and the resulting XML validation error, then determine whether the fix belongs in the tutorial or the Python client; done when the tutorial no longer produces the reported error.

Escrita pelo modelo de indexação a partir do texto da issue.

Avaliação

Stack de tecnologia
jupyter-notebook, python
Domínio
documentation
Tipo de issue
Bug
Dificuldade
3/5
Tempo estimado
1-2 dias
Status de atividade
Estagnada
Clareza
Razoavelmente clara
Facilidade para iniciantes
42/100

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