Hi all,
I've not previously need to use a conditional parameter in a unit test, but for the MIRA wrapper this is essential. Here's my first attempt and the error when running the test:
https://bitbucket.org/peterjc/galaxy-central/commits/794ebc6cafecd3db9388f50...
<tests> <test> <param name="job_method" value="denovo" /> <param name="job_type" value="est" /> <param name="job_qual" value="accurate" /> <param name="condBackbone.use" value="false" /> <param name="condSanger.use" value="true" /> <param name="condSanger.filename" value="tvc_mini.fastq" ftype="fastq" /> <param name="condRoche.use" value="false" /> <param name="condIllumina.use" value="false" /> <param name="condIonTorrent.use" value="false" /> <output name="out_fasta" file="tvc_contigs.fasta" ftype="fasta" /> </test> </tests>
Note that I can't refer to the parameters by the final part of their name ("use") as this is ambiguous. The dot syntax is natural to match that used in the Cheetah templates, but does not appear to work in the tool tests:
$ ./run_functional_tests.sh -id mira_assembler ... ====================================================================== ERROR: Assemble with MIRA v3.4 ( mira_assembler ) > Test-1 ---------------------------------------------------------------------- Traceback (most recent call last): File "/mnt/galaxy/galaxy-central/test/functional/test_toolbox.py", line 171, in test_tool self.do_it( td, shed_tool_id=shed_tool_id ) File "/mnt/galaxy/galaxy-central/test/functional/test_toolbox.py", line 76, in do_it page_inputs = self.__expand_grouping(testdef.tool.inputs_by_page[0], all_inputs) File "/mnt/galaxy/galaxy-central/test/functional/test_toolbox.py", line 118, in __expand_grouping if declared_inputs[ value.test_param.name ] == case.value: KeyError: 'use'
Is there something wrong with my test, or is this not yet supported?
Thanks,
Peter