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Failing on valid XML #362

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hexylena opened this issue Oct 31, 2015 · 0 comments
Closed

Failing on valid XML #362

hexylena opened this issue Oct 31, 2015 · 0 comments
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@hexylena
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Error loading tool with path /home/hxr/work/tools-iuc/tools/ncbi_entrez_eutils/esearch.xml
Traceback (most recent call last):
  File "/usr/local/lib/python2.7/dist-packages/planemo_ext/galaxy/tools/loader_directory.py", line 39, in load_tool_elements_from_path
    tool_elements.append((file, loader.load_tool(file)))
TypeError: expected a character buffer object
Could not lint /home/hxr/work/tools-iuc/tools/ncbi_entrez_eutils/esearch.xml due to malformed xml.

The snippet in particular that triggered this was the following in the macros file:

<token name="@REFERENCES@"><![CDATA[]]></token>
@hexylena hexylena added the bug label Oct 31, 2015
hexylena added a commit to galaxyproject/tools-iuc that referenced this issue Oct 31, 2015
@hexylena
Remove stdio
98f82c5 
Empty CDATA is an issue. galaxyproject/planemo#362
jmchilton added a commit to jmchilton/galaxy that referenced this issue Nov 18, 2015
@jmchilton
Fix macro bug with empty CDATA being None instead of ''.
05f3da3 
Fixes galaxyproject/planemo#362 thanks for the report @erasche.

Test using the following command:

```
nosetests test/unit/tools/test_tool_loader.py
```
This was referenced Nov 18, 2015
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@hexylena