Hi Peter

We found that it was a problem in the Galaxy code - it was fixed in the
some of the patches that went towards the 16.01 release.

Thanks,
Peter


On 4 February 2016 at 13:47, Peter Briggs <peter.bri...@manchester.ac.uk>
wrote:

> Hello Peter
>
> I'm the author of the Trimmomatic tool on the toolshed (i.e.
> https://toolshed.g2.bx.psu.edu/view/pjbriggs/trimmomatic) - apologies for
> not responding sooner.
>
> The tool works for me on our production server (v15.10 from github) when
> using a pair of fastqs as input, by which I mean that it allows me to
> select a fastq-pair dataset as input and produces 2 fastq-pair datasets.
> (I'm haven't tried on a list of pairs.)
>
> What do you see when you say that the tool 'is not working'? I'm wondering
> if it is a problem with the tool itself, or something to do with the
> underlying Galaxy infrastructure when using the head of the dev branch).
>
> Best wishes
>
> Peter
>
>
> On 22/01/16 13:53, Peter van Heusden wrote:
>
>> Hi there
>>
>> I've got Trimmomatic installed (from the toolshed) into our local Galaxy
>> server (server is latest commit on the dev branch from GitHub). It
>> refuses to see a dataset pair as a valid input, however.
>>
>> I've tested this with two types: firstly a pair made out of 2 individual
>> datasets (both fastqsanger) and then also a list of pairs. I've tested
>> this with 'planemo serve' and the tool works, but for some reason it is
>> not working on our server. Any ideas?
>>
>> Thanks,
>> Peter
>>
>>
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> --
> Peter Briggs peter.bri...@manchester.ac.uk
> Bioinformatics Core Facility University of Manchester
> B.1083 Michael Smith Bldg Tel: (0161) 2751482
> ___________________________________________________________
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