[galaxy-user] NGS Fastq Trimmer error

Hi Wang,

please check if your fastq file is associated with the correct fastq format, fastqsanger probably.

Cheers, Bjoern

Hi,

I just notice that NGS FASTQ Trimmer by column can't detect the fastq file I loaded. Anyone knows why. thanks a lot.

On Fri, Jan 24, 2014 at 11:00 AM, galaxy-user-request@lists.bx.psu.edu wrote: Send galaxy-user mailing list submissions to galaxy-user@lists.bx.psu.edu

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    Today's Topics:

       1. Re: Creating a Trackster visualisation from a
    reference in
          your history (Jeremy Goecks)


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    Message: 1
    Date: Thu, 23 Jan 2014 15:49:44 -0500
    From: Jeremy Goecks <jgoecks@email.gwu.edu>
    To: graham etherington (TSL)
            <graham.etherington@sainsbury-laboratory.ac.uk>
    Cc: galaxy-user@lists.bx.psu.edu
    Subject: Re: [galaxy-user] Creating a Trackster visualisation
    from a
            reference in your history
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    Content-Type: text/plain; charset="windows-1252"

    > Is it possible to create a custom build and use it to view a
    SAM file without adding the .len and .2bit files in to the
    Galaxy file system as an administrator?

    Yes, it definitely is.

    > If so, what am I doing wrong?


    This is a Galaxy bug which has been fixed in this commit:

    https://bitbucket.org/galaxy/galaxy-central/commits/117fef56513fc563dd231516196cfd601c1635e2

    We have a release coming up, so this fix will be included in
    the release and will make it to our public server soon. In the
    meantime, note that you can use the genome fasta file rather
    than the len file to create a custom build and everything
    should work.

    Thanks,
    J.