Hello Peter

Glad that you found the problem, thanks for the update.

Best wishes

Peter

On 04/02/16 12:20, Peter van Heusden wrote:
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
<mailto: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
    <mailto:peter.bri...@manchester.ac.uk>
    Bioinformatics Core Facility University of Manchester
    B.1083 Michael Smith Bldg Tel: (0161) 2751482
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___________________________________________________________
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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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