Hey Peter, Have you seen this solution?
https://wiki.galaxyproject.org/Admin/Tools/Multiple%20Output%20Files#Number_of_Output_datasets_cannot_be_determined_until_tool_run It always seems to get mentioned when this topic is brought up. It has serious limitations in terms or workflow running, but it can probably be made to work for individual tool executions. Otherwise I would wait for future feature sets :), maybe other people have some good ideas however. -John On Wed, Feb 19, 2014 at 7:16 AM, Peter Cock <p.j.a.c...@googlemail.com> wrote: > Hi all, > > I'm looking for examples of tools which take multiple input > files (one or more, determined at run time) and produce > multiple output files (one for each input file). Any > specific suggestions? > > I have a number of sequence filtering/renaming tools > where this might be useful - in some cases taking > multiple input files and producing a single output is > fine, but in general I'd like to know how to preserve a > one to one mapping from input files to output files. > > I realise this may overlap slightly with the work John is > doing on dataset collections, but for now I'd like to target > the current Galaxy feature set. > > In some of the simpler cases, if I have N input datasets > and want N output files, I can just run the tool N times . > This means more steps in the Galaxy GUI, but it isn't > very complicated. > > However, for the current problem I need access to all > the inputs at once for setting overall data derived > parameters. > > Regards, > > Peter > ___________________________________________________________ > 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/ > > 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: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/