Re: [galaxy-dev] planemo update failing on testtoolshed

[Björn Grüning]

Hi Peter,

can you try to delete files with the web interface?

I saw the tool name, do you know this small tool?
https://github.com/bgruening/galaxytools/blob/master/tools/splitfasta/splitFasta.xml

Cheers,
Bjoern

Am 18.03.2016 um 20:03 schrieb Peter van Heusden:
> Hi there
> 
> I'm trying to update a newly created tool on the test tool shed and I
> get this error:
> 
> $ planemo shed_update -t testtoolshed
> cd '/home/pvh/PycharmProjects/split_fasta_chunks' && git rev-parse HEAD
> cd '/home/pvh/PycharmProjects/split_fasta_chunks' && git diff --quiet
> Could not update split_fasta_chunks
> Unexpected response from galaxy: 500: 
>   Internal Server Error
>   
> Internal Server Error
> The server has either erred or is incapable of performing
> the requested operation.
> 
> 
> 
> 
> WSGI Server
>   
> 
> 
> Repository metadata updated.
> Failed to update a repository.
> 
> I might have accidentally created a "bad" repository that is leading to
> this error. This is with version 0.23.0. Alternately, is there a way to
> delete the tool so that I can try and recreate it?
> 
> Thanks!
> Peter
> 
> 
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Re: [galaxy-dev] planemo update failing on testtoolshed

[Peter van Heusden]

The repo is empty, so there is nothing to delete at this stage. And I can't
figure out how to delete the thing entirely.

I looked at the splitFasta tool, and also the splitfasta tool from rnateam
(in the test toolshed) and these split into 1 file for each sequence as
opposed to a certain number of chunks.

Peter

On 18 March 2016 at 21:11, Björn Grüning  wrote:

> Hi Peter,
>
> can you try to delete files with the web interface?
>
> I saw the tool name, do you know this small tool?
>
> https://github.com/bgruening/galaxytools/blob/master/tools/splitfasta/splitFasta.xml
>
> Cheers,
> Bjoern
>
> Am 18.03.2016 um 20:03 schrieb Peter van Heusden:
> > Hi there
> >
> > I'm trying to update a newly created tool on the test tool shed and I
> > get this error:
> >
> > $ planemo shed_update -t testtoolshed
> > cd '/home/pvh/PycharmProjects/split_fasta_chunks' && git rev-parse HEAD
> > cd '/home/pvh/PycharmProjects/split_fasta_chunks' && git diff --quiet
> > Could not update split_fasta_chunks
> > Unexpected response from galaxy: 500: 
> >   Internal Server Error
> >   
> > Internal Server Error
> > The server has either erred or is incapable of performing
> > the requested operation.
> >
> > 
> > 
> > 
> > WSGI Server
> >   
> > 
> >
> > Repository metadata updated.
> > Failed to update a repository.
> >
> > I might have accidentally created a "bad" repository that is leading to
> > this error. This is with version 0.23.0. Alternately, is there a way to
> > delete the tool so that I can try and recreate it?
> >
> > Thanks!
> > Peter
> >
> >
> > ___
> > 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/mailinglists/
> >
>
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[galaxy-dev] planemo update failing on testtoolshed

[Peter van Heusden]

Hi there

I'm trying to update a newly created tool on the test tool shed and I get
this error:

$ planemo shed_update -t testtoolshed
cd '/home/pvh/PycharmProjects/split_fasta_chunks' && git rev-parse HEAD
cd '/home/pvh/PycharmProjects/split_fasta_chunks' && git diff --quiet
Could not update split_fasta_chunks
Unexpected response from galaxy: 500: 
  Internal Server Error
  
Internal Server Error
The server has either erred or is incapable of performing
the requested operation.




WSGI Server
  


Repository metadata updated.
Failed to update a repository.

I might have accidentally created a "bad" repository that is leading to
this error. This is with version 0.23.0. Alternately, is there a way to
delete the tool so that I can try and recreate it?

Thanks!
Peter
___
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/

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  http://galaxyproject.org/search/mailinglists/