Question: Tests on a tool with an input of type data_collection
0
yliu41 • 50 wrote:
Hello folks,
My Tool#1 is using a data_collection type created by Tool#2 as an input parameter.
<param name="trix_index"
type="data_collection"
collection_type="list"
label="Specify Trix index"
help="Dataset collection containing ix and ixx files generated by UCSC Trix Index Generator"
/>
Below is how the collection is created in Tool#2:
<outputs>
<collection name="trix_index" type="list" label="Trix index">
<data name="index_ix" format="txt" from_work_dir="output.ix"/>
<data name="index_ixx" format="txt" from_work_dir="output.ixx" />
</collection>
</outputs>
Now, I want to write a test case for my Tool#1. But I am not sure how to specify individual elements "index_ix" and "index_ixx" for data_collection "trix_index" of type "list". I found an example for type "paired" (collection_paired_test.xml and tried the code as below:
<param name="trix_index">
<collection type="list">
<element name="index_ix" value="trix_index_files/blast_out.ix" />
<element name="index_ixx" value="trix_index_files/blast_out.ixx" />
</collection>
</param>
Unfortunately, this didn't work. I got the error:
File "/home/gonramp/.dev/local/lib/python2.7/site-packages/planemo/test/results.py", line 101, in failed_ids
if test_data["data"]["status"] == "success":
TypeError: 'NoneType' object has no attribute '__getitem__'
Thank you in advance for any hints or suggestions!
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modified 13 months ago
by
Jennifer Hillman Jackson ♦ 25k
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written
13 months ago by
yliu41 • 50
