Hi Gang,

I can't comment about a PC (I use a MAC), but this shouldn't matter. If you are using a local Galaxy (http://getgalaxy.org http://usegalaxy.org/toolshed), most tools will follow the same usage rules as when implemented on the public Main Galaxy instance at http://usegalaxy.org, the Galaxy CloudMan ami, and the bulk of other public Galaxy instances, at least for common tools.


Exceptions would be if the tool(s) were specifically modified to function differently. Galaxy is open source and variations exist. The tool form of any alternate version (of a tool named the same) will likely note what modifications have been made. Plus you can always contact the other public instance hosts, if you have usage problems.

Best!

Jen
Galaxy team

On 2/13/14 2:26 PM, Gang Wang wrote:
By the way, can you use detect the fastq file using trimmer by column with your PC. Thanks a lot.


Gang


On Thu, Feb 13, 2014 at 1:14 PM, Björn Grüning <bjoern.gruen...@gmail.com <mailto:bjoern.gruen...@gmail.com>> wrote:

    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,
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    ----------------------------------------------------------------------
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    >         Message: 1
    >         Date: Thu, 23 Jan 2014 15:49:44 -0500
    >         From: Jeremy Goecks <jgoe...@email.gwu.edu
    <mailto:jgoe...@email.gwu.edu>>
    >         To: graham etherington (TSL)
    >                 <graham.ethering...@sainsbury-laboratory.ac.uk
    <mailto:graham.ethering...@sainsbury-laboratory.ac.uk>>
    >         Cc: galaxy-user@lists.bx.psu.edu
    <mailto:galaxy-user@lists.bx.psu.edu>
    >         Subject: Re: [galaxy-user] Creating a Trackster
    visualisation
    >         from a
    >                 reference in your history
    >         Message-ID:
    >         <c3382f38-d243-4979-b6a7-ba13ef161...@email.gwu.edu
    <mailto:c3382f38-d243-4979-b6a7-ba13ef161...@email.gwu.edu>>
    >         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.
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    >
    >
    > --
    > Gang Wang
    > Ph.D. student
    > Veterinary Integrative Bioscience
    > College of Veterinary Medicine & Biomedical Sciences
    > Texas A&M University
    > College Station, TX  77843-4458
    >
    >
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--
Gang Wang
Ph.D. student
Veterinary Integrative Bioscience
College of Veterinary Medicine & Biomedical Sciences
Texas A&M University
College Station, TX  77843-4458




___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

   http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

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To search Galaxy mailing lists use the unified search at:

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--
Jennifer Hillman-Jackson
http://galaxyproject.org

___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

  http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

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To search Galaxy mailing lists use the unified search at:

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