Wow, great tip! This fixed it!
Thanks a bunch!
Matthias
> Op 26 jan. 2016, om 15:20 heeft Hans-Rudolf Hotz <h...@fmi.ch> het volgende
> geschreven:
>
> Hi Matthias
>
>
> Make sure 'listing' is a list of (displayName,value,boolean)
>
> Though, there might be other errors as well
>
>
> Regards, Hans-Rudolf
>
> I am not sure, whether this
> On 01/26/2016 01:22 PM, Matthias De Smet wrote:
>> Hi all,
>>
>> I’m trying to develop a tool that lets you select a file on the server.
>> I’m using the dynamic_options setting to let Galaxy render a dropdown
>> list of available file.
>>
>>
>> However, when I try to test the tool in its current form, I get the
>> following error:
>>
>> <pre>
>> galaxy.web.framework.decorators ERROR 2016-01-26 13:08:35,649 Uncaught
>> exception in exposed API method:
>> Traceback (most recent call last):
>> File "lib/galaxy/web/framework/decorators.py", line 260, in decorator
>> rval = func( self, trans, *args, **kwargs)
>> File "lib/galaxy/webapps/galaxy/api/tools.py", line 98, in build
>> return tool.to_json(trans, kwd.get('inputs', kwd))
>> File "lib/galaxy/tools/__init__.py", line 2602, in to_json
>> populate_state(trans, self.inputs, state_inputs, state_errors,
>> params.__dict__)
>> File "lib/galaxy/tools/__init__.py", line 2471, in populate_state
>> state[input.name] = input.get_initial_value(trans, context,
>> history=history)
>> File "lib/galaxy/tools/parameters/basic.py", line 984, in
>> get_initial_value
>> value = [ optval for _, optval, selected in options if selected ]
>> ValueError: too many values to unpack
>> </pre>
>>
>> My tool xml looks like this:
>>
>> <pre>
>>
>> <tool id="archivetolibrary" name="Copy files" version="0.1.0">
>> <description>from the archive to a data library</description>
>> <code file="list_files.py"/>
>> <command interpreter="bash">
>> test.sh > $log
>> </command>
>> <inputs>
>> <param name="archive_source" type="select" display="radio"
>> label="Choose source archive">
>> <options from_file="archives.loc">
>> <column name="name" index="0"/>
>> <column name="value" index="1"/>
>> </options>
>> </param>
>> <param name="query" type="text" label="Search for files"/>
>> <param name="selected_file" type="select" label="Choose your file"
>> dynamic_options="list_files(archive_source,query)"/>
>> </inputs>
>> <outputs>
>> <data name="log" format="txt" label="${tool.name} on
>> ${on_string}"></data>
>> </outputs>
>> <tests>
>> <test>
>> </test>
>> </tests>
>> <help>
>> This tool copies data from and archive folder to your history. Keep in
>> mind this folder MUST be readable by Galaxy in order for this tool to work.
>> </help>
>> </tool>
>>
>> </pre>
>>
>> and the script called in the “code” tag looks like this
>>
>> <pre>
>> def list_files(dir,query): listing=[]
>> for fname in listdir(dir):
>> fullpath = path.join(dir, fname) #only select datafiles, not md5
>> checksums
>> if path.isfile(fullpath) and not fullpath.endswith(".md5"):
>> listing.append( fname )
>> return listing
>> </pre>
>>
>> This script should return a list with filenames that should be displayed
>> in the dropdown list.
>>
>> I’m tracking Galaxy release 15.10, running on a Ubuntu 14.04.3 server
>>
>> Thanks for your help!
>>
>> Matthias
>>
>>
>>
>>
>>
>>
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