The option in the GUI for selecting multiple datasets for a single data parameter - causes multiple jobs to be created as you noted. If you just place multiple="true" on your data input parameter - that button will go away and all the datasets will be used for a single job.
If your tool consumes pairs of datasets - you will want to expose an option where you are using a parameter like: <input name="input_pairs" type="data_collection" collection_type="list:paired" format="fastq" /> and then your users will have to use the data collection creator to pair off the datasets into a big list before using your tool - but the creator is actually really nice - I think it makes it very easy to build large lists of pairs. Hope this helps - happy to provide more details, -John On Fri, Jun 19, 2015 at 11:24 AM, Ryan G <ngsbioinformat...@gmail.com> wrote: > Hi all - I have a tool which is essentially an entire NGS pipeline bundled > into a perl script and associated modules. I'd like to offer this tool to > users via Galaxy. > > I'm trying to pass a bunch of fastq files to the tool, but noticed that > operating on multiple datasets creates a separate job for each dataset. I > want to pass all the datasets to the tool so only one galaxy job is actually > created. Is this possible, and if so, how do I go about doing this? > > Ryan > > > ___________________________________________________________ > 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: > https://lists.galaxyproject.org/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ ___________________________________________________________ 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: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
