From sachit.technerves@gmail.com Thu Nov 29 04:41:31 2012
From: Sachit Adhikari <sachit.technerves@gmail.com>
To: galaxy-user@lists.galaxyproject.org
Subject: [galaxy-user] Bismark Error: Data table named 'bismark_bs_indeces' is
 required by tool but not configured.
Date: Thu, 29 Nov 2012 09:41:24 +0000
Message-ID:
 <CAFQtAgVN+-QwOCk9PNKTLmcSBOBMFcvoMGBqVe5+sU5dKtoujQ@mail.gmail.com>
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Hi all,
I am seeing this error while clicking on Bismark in Galaxy. I got the
Bismark for galaxy tool shed. I tried to get another bismark wrapper
developed by Bjoern. I didnt know how to download that. What's the error?
Thanks



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From greg@bx.psu.edu Thu Nov 29 06:29:58 2012
From: Greg Von Kuster <greg@bx.psu.edu>
To: galaxy-user@lists.galaxyproject.org
Subject: Re: [galaxy-user] Bismark Error: Data table named
	'bismark_bs_indeces' is required by tool but not configured.
Date: Thu, 29 Nov 2012 06:29:56 -0500
Message-ID: <59810EA2-D1F5-4D8B-9864-7D9D1C4ED5D4@bx.psu.edu>
In-Reply-To:
 <CAFQtAgVN+-QwOCk9PNKTLmcSBOBMFcvoMGBqVe5+sU5dKtoujQ@mail.gmail.com>
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Hello Sachit,

It looks like you installed this from the test tool shed since it is not avai=
lable on the main tool shed.  Assuming I've located the repository you instal=
led, it looks like you'll have to manually add the following entry into your =
tool_data_table_conf.xml file.  This should have been done automatically for =
you when you installed the repository, but I'm not sure why it didn't.  Maybe=
 you're running an older version of Galaxy that doesn't include this automate=
d feature.

Greg Von Kuster

   <!-- Locations of all bismark converted bs-seq references -->
   <table name=3D"bismark_bs_indeces" comment_char=3D"#">
       <columns>value, dbkey, name, path</columns>
       <file path=3D"tool-data/bismark_bs_indeces.loc" />
   </table>


On Nov 29, 2012, at 4:41 AM, Sachit Adhikari wrote:

> Hi all,
> I am seeing this error while clicking on Bismark in Galaxy. I got the Bisma=
rk for galaxy tool shed. I tried to get another bismark wrapper developed by =
Bjoern. I didnt know how to download that. What's the error? Thanks
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