Fixed in -central changeset 05a172868303 Thanks, J.
On Sep 18, 2012, at 4:57 PM, Jim Johnson wrote: > The filter on the tophat2 fusions output wasn't being evaluated correctly > when settingsType is preSet since the param dict wouldn't then have an entry > for 'fusion_search' > > $ hg diff tools/ngs_rna/tophat2_wrapper.xml > diff -r 3f12146d6d81 tools/ngs_rna/tophat2_wrapper.xml > --- a/tools/ngs_rna/tophat2_wrapper.xml Tue Sep 18 14:10:56 2012 -0400 > +++ b/tools/ngs_rna/tophat2_wrapper.xml Tue Sep 18 15:47:47 2012 -0500 > @@ -297,7 +297,7 @@ > > <outputs> > <data format="tabular" name="fusions" label="${tool.name} on > ${on_string}: fusions" from_work_dir="tophat_out/fusions.out"> > - <filter>(params['fusion_search']['do_search'] == 'Yes')</filter> > + <filter>(params['settingsType'] == 'full' and > params['fusion_search']['do_search'] == 'Yes')</filter> > </data> > <data format="bed" name="insertions" label="${tool.name} on > ${on_string}: insertions" from_work_dir="tophat_out/insertions.bed"> > <actions> > ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/