Problems with BlastDB.loc

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Problems with BlastDB.loc

Enders Matthias

Dear Galaxy Dev List,

 

we currently facing a problem with integrating new Blast Databases in our Galaxy instance.

 

We added a the new DB to the file:

/galaxy-central/tool-data/blastdb.loc

 

But the new Database didn’t show up in the respective tools, this situation remains also after restarting the galaxy instance and reloading the tool config (blasn for example).

 

As we included several databases before (which worked fine) we tried to find the error an excluded (out-commented) an existing Db, but this database stayed in the tools. So the blastdb.loc file seems to be ignored by galaxy.

(This is consistent for multiple users and browser, so we are sure this is not a client-sided Browser-Cache issue)

 

So my questions are: Is there any kind of internal Cache in Galaxy which could explain this behavior? How can we track down / solve the issue?

 

Our Galaxy Version is 17.05

 

Thanks a lot in advance!

 

Mit freundlichen Grüßen

 

i.A. Matthias Enders

**********************************

cid:image002.png@01CF9B54.EBA59810

 

NPZ Innovation GmbH

Hohenlieth-Hof, D-24363 Holtsee

Tel.        <a href="tel:%2B49-4351-736%20189" target="_blank">+49-4351-736 189

Fax         <a href="tel:%2B49-4351-736%20271" target="_blank">+49-4351-736 271

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Amtsgericht Kiel, HRB 15342 Kl

Geschäftsführer: Dr. Gunhild Leckband, Thorsten Pommer

 


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Re: Problems with BlastDB.loc

Peter Cock
What does your config/tool_data_table_conf.xml[.sample] file have?

Can you turn on the debugging as this will will give more information
about the *.loc files. e.g.

https://github.com/galaxyproject/galaxy/pull/3095
https://github.com/galaxyproject/galaxy/pull/3099

Peter

On Wed, Oct 18, 2017 at 8:02 AM, Enders Matthias
<[hidden email]> wrote:

> Dear Galaxy Dev List,
>
>
>
> we currently facing a problem with integrating new Blast Databases in our
> Galaxy instance.
>
>
>
> We added a the new DB to the file:
>
> /galaxy-central/tool-data/blastdb.loc
>
>
>
> But the new Database didn’t show up in the respective tools, this situation
> remains also after restarting the galaxy instance and reloading the tool
> config (blasn for example).
>
>
>
> As we included several databases before (which worked fine) we tried to find
> the error an excluded (out-commented) an existing Db, but this database
> stayed in the tools. So the blastdb.loc file seems to be ignored by galaxy.
>
> (This is consistent for multiple users and browser, so we are sure this is
> not a client-sided Browser-Cache issue)
>
>
>
> So my questions are: Is there any kind of internal Cache in Galaxy which
> could explain this behavior? How can we track down / solve the issue?
>
>
>
> Our Galaxy Version is 17.05
>
>
>
> Thanks a lot in advance!
>
>
>
> Mit freundlichen Grüßen
>
>
>
> i.A. Matthias Enders
>
> **********************************
>
>
>
> NPZ Innovation GmbH
>
> Hohenlieth-Hof, D-24363 Holtsee
>
> Tel.        +49-4351-736 189
>
> Fax         +49-4351-736 271
>
> Mobil:   +49-151-14247360
>
> Mail:      [hidden email]
>
> Web:     www.npz-innovation.de
>
>
>
> Firmensitz Hohenlieth, Holtsee
>
> Amtsgericht Kiel, HRB 15342 Kl
>
> Geschäftsführer: Dr. Gunhild Leckband, Thorsten Pommer
>
>
>
>
> ___________________________________________________________
> Please keep all replies on the list by using "reply all"
> in your mail client.  To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>   https://lists.galaxyproject.org/
>
> To search Galaxy mailing lists use the unified search at:
>   http://galaxyproject.org/search/
___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
  https://lists.galaxyproject.org/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/