Question: tool.xml : multiple but optional data
1
gravatar for plindenbaum
18 months ago by
plindenbaum90
France
plindenbaum90 wrote:

Hi all,

I'm trying to wrap a tool where there is an optional+multiple param declared as:

<command>
(...)
#if $input_intervals :
#for $idx, $rgn in enumerate( $input_intervals ):
   -B "${rgn}"
#end for
#end if
(...)
</command>

(...)

<inputs>
    <param name="input_intervals" optional="true"  multiple="true" type="data" format="bed,picard_interval_list,vcf" label="Regions"/>
(...)

I leave the param empty, and I get an error:

'DatasetListWrapper' object has no attribute 'value'

if I remove the test : #if $input_intervals :, then the tool is launched but galaxy creates a "None"

 -B None

current status :

:-P

tool param xml wrapper • 540 views
ADD COMMENTlink modified 18 months ago by jmchilton1.0k • written 18 months ago by plindenbaum90

Note: the <param> xml and the cheetah code are in fact inserted with a macro.xml.

ADD REPLYlink written 18 months ago by plindenbaum90
2
gravatar for jmchilton
18 months ago by
jmchilton1.0k
United States
jmchilton1.0k wrote:

I'm very sorry for the inconvenience and counter intuitiveness of the way empty selections are handled here. I've opened a PR against Galaxy to spell out what is going on in the documentation and to provide an example of how to work with an empty selection drawing from your example. It is here - https://github.com/galaxyproject/galaxy/pull/3024. Hope it helps.

ADD COMMENTlink written 18 months ago by jmchilton1.0k

Thank you John , I'll have a look at this on monday morning !

ADD REPLYlink written 18 months ago by plindenbaum90

It worked. Thanks ! :-)

ADD REPLYlink written 18 months ago by plindenbaum90
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