Hi Damion,

An initial implementation of the library dataset tool parameter (which
allows the selection of multiple library datasets) is currently in the
pipeline https://github.com/galaxyproject/galaxy/pull/132. After some
review the feature should be available in the default branch, however you
may try it now if you are interested.

Thanks,
Sam

On Tue, Jan 20, 2015 at 2:45 PM, Dooley, Damion <damion.doo...@bccdc.ca>
wrote:

> I was successful getting library dataset selection and form submission to
> happen within tool form tool form input <param type="library_data" ...> -
> Yay!  But it appears one last fix (besides the "url:
> "/visualization/list_libraries",' bug) is needed to enable history tool
> item to be RERUN.
>
> So if a galaxy dev can tackle this, great!  Otherwise I'll have to drop
> this approach :<(
>
> *****************
> For others who may need...
>
> tool form's param:
>
>         <param name="library_datasets" type="library_data"
> label="Reference Bin file" help="Select one reference bin at a time from
> the popup window's Reference Bin library."/>
>
> <command> tag contents....
>
>         #if $library_datasets
>         -B "
>         #for $i, $dataset in enumerate($library_datasets)
>                 #$dataset.get_file_name()
>                 $dataset.id
>         #end for
>         "
>         #end if
>
> Successfully submits either the full file path of selected dataset, or its
> id.
>
> *****************
> However trying to rerun this history tool item gets us an error (not
> related to the above <command> contents):
>
>         Error Traceback:
>         View as:   Interactive  |  Text  |  XML (full)
>         ⇝ AttributeError: 'int' object has no attribute 'id'
>         ....
>         Module galaxy.tools.parameters.basic:146 in value_to_basic
>   view
>         >>  return self.to_string( value, app )
>         Module galaxy.tools.parameters.basic:2406 in to_string
>         app     <galaxy.app.UniverseApplication object at 0x59a0710>
>         ldda    331
>         self    <galaxy.tools.parameters.basic.LibraryDatasetToolParameter
> object at 0x7fced01d2090>
>         value   [331]
>         >>  return [ldda.id for ldda in value]
>         AttributeError: 'int' object has no attribute 'id'
>
> which is in /lib/galaxy/tools/parameters/basic.py:
>
>         class LibraryDatasetToolParameter( ToolParameter ):
>             """
>             Parameter that lets users select a LDDA from a modal window,
> then use it within the wrapper.
>             """
>
>         ...
>             def to_string( self, value, app ):
>                 if not value:
>                     return value
>                 return [ldda.id for ldda in value]
>
> "Value" is getting an array of dataset ids, whereas this method is
> expecting value to be a list of dataset objects.  I tried changing ldda.id
> to just "id" but found other parts of  LibraryDatasetTool code were broken
> as they too were expecting an object.  Maybe this is related to the tool
> job's history detail link showing "Reference Bin file" as a string label of
> an object?:
>
>         Input Parameter Value   Note for rerun
>         BLAST results as XML    240: megablast Pasted Entry vs
> 16SMicrobial.fasta
>         Reference Bin file
> [<galaxy.model.LibraryDatasetDatasetAssociation object at 0x7fcee04d4350>]
>         Tabular Report Column Labels    Short name
>         HTML Report template    templates.html_report
>
>
>
> ********************************
> The other bug:
>
> 2) Tool_form.mako has a hardcoded url that doesn't work for galaxy
> installs that have a prefix so that needs adjustment:
>
>   $(".add-librarydataset").click(function() {
>                 var link = $(this);
>                 $.ajax({
>                     url: "/visualization/list_libraries",
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