On Tue, Mar 11, 2014 at 2:58 PM, Björn Grüning
<bjoern.gruen...@gmail.com> wrote:
> Hi Peter,
>
> I think you need to have:
>
> <change_format>
> <when input="output.out_format" value="0" format="txt"/>
> <when input="output.out_format" value="0 -html" format="html"/>
> <when input="output.out_format" value="2" format="txt"/>
> <when input="output.out_format" value="2 -html" format="html"/>
> <when input="output.out_format" value="4" format="txt"/>
> <when input="output.out_format" value="4 -html" format="html"/>
> <when input="output.out_format" value="5" format="blastxml"/>
> </change_format>
>
>
> Sorry, can't test it right now.
That seems to work - thanks Björn :)
This seems to have exposed a bug in the <test> framework, e.g.
<test>
<param name="query" value="rhodopsin_nucs.fasta" ftype="fasta" />
<param name="db_opts_selector" value="file" />
<param name="subject" value="three_human_mRNA.fasta"
ftype="fasta" />
<param name="database" value="" />
<param name="evalue_cutoff" value="1e-40" />
<param name="out_format" value="5" />
<param name="adv_opts_selector" value="basic" />
<output name="output1"
file="blastn_rhodopsin_vs_three_human.xml" ftype="blastxml" />
</test>
This was saying the output should have been "blastxml",
but until I just fixed it the output was being tagged as
"tabular" (although run_functional_tests.sh did check
the content it didn't check the datatype matched).
Dave - do think this is a reasonable enhancement?
Peter
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