SequenceDumper.pm issue revisited

[Maureen J. Donlin]

Working with Gbrowse2.
Downloaded a GFF3 file from NCBI, loaded into a MySQL database.

When I try to search for a feature, I get this error in my log file:

"Can't locate
/usr/local/apache2/conf/gbrowse.conf/plugins/SequenceDumper.pm in @INC
...referer http://hagrid.slu.edu/cgi-bin/gbrowse/dradians/

This was discussed on June 1, 2007.  Scott wrote back to say that the
functionality of SequenceDumper.pm has been replaced by BatchDumper.pm

My question: then why is GBrowse2 calling for SequenceDumper.pm?

Thanks,
Maureen


--
Maureen J. Donlin, Ph.D.
Research Associate Professor

Dept. of Molecular Microbiology & Immunology
Dept. of Biochemistry & Molecular Biology
Saint Louis University School of Medicine
507 Doisy Research Center
1100 S. Grand
St. Louis, MO  63104
Phone: [phone]

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[Scott Cain-4]

Hi Maureen,

It looks to me like I never answered this; if that's the case, sorry I
don't know how I missed it.  If I did, please ignore me :-)

The reason the SequenceDumper would be called is that the
configuration file tells it to.  Take it out of the conf file and all
should be well.

Scott


On Tue, Sep 1, 2009 at 4:49 PM, Maureen J. Donlin <donlinmj@...> wrote:

> Working with Gbrowse2.
> Downloaded a GFF3 file from NCBI, loaded into a MySQL database.
>
> When I try to search for a feature, I get this error in my log file:
>
> "Can't locate
> /usr/local/apache2/conf/gbrowse.conf/plugins/SequenceDumper.pm in @INC
> ...referer http://hagrid.slu.edu/cgi-bin/gbrowse/dradians/
>
> This was discussed on June 1, 2007.  Scott wrote back to say that the
> functionality of SequenceDumper.pm has been replaced by BatchDumper.pm
>
> My question: then why is GBrowse2 calling for SequenceDumper.pm?
>
> Thanks,
> Maureen
>
>
> --
> Maureen J. Donlin, Ph.D.
> Research Associate Professor
>
> Dept. of Molecular Microbiology & Immunology
> Dept. of Biochemistry & Molecular Biology
> Saint Louis University School of Medicine
> 507 Doisy Research Center
> 1100 S. Grand
> St. Louis, MO  63104
> Phone: [phone]
>
> ------------------------------------------------------------------------------
> Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day
> trial. Simplify your report design, integration and deployment - and focus on
> what you do best, core application coding. Discover what's new with
> Crystal Reports now.  http://p.sf.net/sfu/bobj-july
> _______________________________________________
> Gmod-gbrowse mailing list
> Gmod-gbrowse@...
> https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
>

--
------------------------------------------------------------------------
Scott Cain, Ph. D.                                   scott at scottcain dot net
GMOD Coordinator (http://gmod.org/)                     216-392-3087
Ontario Institute for Cancer Research

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