Simon and I worked on https://testtoolshed.g2.bx.psu.edu/view/simon-gladman/ trimmomatic_032 during the BOSC 2014 Codefest to add compatibility for sets of pairs of input files via the then-new dataset collections feature.
I'm not seeing support for that in Peter Briggs version though I am no expert and happy to be corrected. Hopefully the two will be merged so we don't lose the enhancements that both bring. On Mon Dec 01 2014 at 10:52:03 AM Peter Cock <p.j.a.c...@googlemail.com> wrote: > Hello all, > > I've not heard back from Simon yet (it was the weekend), but in > the meantime there is a new alternative wrapper from Peter Briggs > which has skipped the Test Tool Shed and gone straight to the > main Tool Shed: > > https://toolshed.g2.bx.psu.edu/view/pjbriggs/trimmomatic > > This one knows Trimmomatic now bundles the Illumina adatpers, > and has tests too (fingers crossed the Tool Shed tests work > tonight) :) > > @PeterB - My only immediate feedback on scanning the repository > is to try renaming README.markdown to README.md as currently > the Tool Shed has not spotted and shown the README file. > > Regards > > PeterC > > On Fri, Nov 28, 2014 at 2:31 PM, Peter Cock <p.j.a.c...@googlemail.com> > wrote: > > Hi Simon, > > > > I was looking for a Trimmomatic wrapper for Galaxy (which I have thus > > far only used at the command line outside of Galaxy), and while there > > does not seem to be one in the main Tool Shed, I see you have been > > working on this over on the Test Tool Shed: > > > > https://testtoolshed.g2.bx.psu.edu/view/simon-gladman/trimmomatic_0_22 > > https://testtoolshed.g2.bx.psu.edu/view/simon-gladman/trimmomatic_032 > > > > Note that according to http://www.usadellab.org/cms/?page=trimmomatic > > the Trimmomatic authors have been given permission to redistribute > > the Illumina adapter sequences now :) > > > > It would be nice to have functional tests, but other than that, what > > status is the wrapper? Are there some issues blocking releasing this > > via the main Tool Shed for wider use? > > > > Thanks, > > > > 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: > https://lists.galaxyproject.org/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/
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